Ug-K.pneumoniae rMAP Comprehensive Analysis Report Summary
2021-09-04
This run was generated using rMAP version performed on 2021-09-04… Thank you for using this pipeline!!
Assembly summary statistics
| Field | Description |
|---|---|
| SampleID | Name of the sample |
| TrimReads | Total number of reads after quality filtering |
| MeanReadLen | Average read length after quality filtering |
| Contigs | Number of contigs of the draft genome (>200bp) |
| GenomeLength | Length (bp) of the draft genome |
| LargestContig | Length (bp) of the largest contig in the genome |
| N50 | Length of the smallest contig in the set that contains the fewest (largest) contigs whose combined length represents at least 50% of the assembly |
| GC-Content | GC content (%) of the draft genome |
| Depth | Number of times each nucleotide position in the draft genome has a read that aligns to that position |
| SampleID | TrimReads | MeanReadLen | Contigs | GenomeLength | LargestContig | N50 | GC-Content | Depth |
|---|---|---|---|---|---|---|---|---|
| ID014 | 439599 | 234 | 379 | 5441988 | 113622 | 30545 | 56.93 | 18X |
| ID022 | 319298 | 241 | 447 | 5480234 | 103223 | 25709 | 56.51 | 14X |
| ID030III | 298203 | 235 | 148 | 4601618 | 190952 | 86402 | 50.74 | 15X |
| ID030II | 520039 | 233 | 109 | 5275285 | 347517 | 129143 | 50.46 | 22X |
| ID030I | 326818 | 222 | 259 | 5283048 | 226676 | 74409 | 50.53 | 13X |
| ID042 | 350200 | 231 | 93 | 4978876 | 280668 | 139461 | 50.65 | 16X |
| ID049 | 370324 | 230 | 127 | 4823028 | 244483 | 88489 | 50.77 | 17X |
| ID051II | 334387 | 234 | 621 | 5356381 | 85136 | 17951 | 56.89 | 14X |
| ID064 | 358332 | 241 | 501 | 5128843 | 112772 | 21595 | 57.16 | 16X |
| ID100 | 352014 | 240 | 1119 | 4940114 | 47063 | 7769 | 56.07 | 17X |
Select the parameter
Number of reads
Average number of reads per sample = 366921
Average read length
Average read length per sample = 234 bp
Number of contigs
Average number of contigs per sample = 380
Genome length
Average genome length per sample = 5130942 bp
Largest contig length
Average largest contig length per sample = 175211 bp
N50
Average N50 per sample = 62147 bp
GC content
Average GC content per sample = 53.671%
Sequencing depth
Average sequencing depth = 16.2X
SNP-variant calling
| Field | Description |
|---|---|
| GenomePosition | Position in the genome where SNP is found |
| Type | Nature of the SNP identified (Only ‘True’ SNPs are shown by default) |
| ReferenceAllele | Allele found in the reference genome |
| AlternateAllele | Allele found in the genome of interest forming the SNP |
| Consequence | Amino acid alterations caused by the SNP |
| AffectedGene | The tartget gene affected by the SNP |
| Product | The outcome from the presence of the SNP |
Select the sample
ID014
| GenomePosition | Type | ReferenceAllele | AlternateAllele | Consequence | AffectedGene | Product |
|---|---|---|---|---|---|---|
| 338926 | snp | G | A | missense_variant c.71G>A p.Gly24Asp | NA | 6-N-hydroxylaminopurine resistance protein |
| 338973 | snp | A | G | missense_variant c.118A>G p.Asn40Asp | NA | 6-N-hydroxylaminopurine resistance protein |
| 884398 | snp | C | T | missense_variant c.1031G>A p.Ser344Asn | NA | copper resistance protein |
| 884572 | snp | C | T | missense_variant c.857G>A p.Ser286Asn | NA | copper resistance protein |
| 884579 | snp | G | T | missense_variant c.850C>A p.Arg284Ser | NA | copper resistance protein |
| 884590 | snp | C | T | missense_variant c.839G>A p.Gly280Asp | NA | copper resistance protein |
| 884952 | snp | C | A | missense_variant c.477G>T p.Glu159Asp | NA | copper resistance protein |
| 885109 | snp | G | C | missense_variant c.320C>G p.Thr107Ser | NA | copper resistance protein |
| 885118 | snp | A | G | missense_variant c.311T>C p.Val104Ala | NA | copper resistance protein |
| 885326 | snp | A | C | missense_variant c.103T>G p.Ser35Ala | NA | copper resistance protein |
| 885380 | snp | G | C | missense_variant c.49C>G p.Leu17Val | NA | copper resistance protein |
| 2210689 | snp | G | A | missense_variant c.391C>T p.His131Tyr | NA | multidrug resistance protein MdtH |
| 2483142 | snp | G | A | missense_variant c.1017G>A p.Met339Ile | NA | quinolone resistance protein |
| 3117128 | snp | A | G | missense_variant c.539T>C p.Val180Ala | NA | tellurite resistance protein TehB |
| 3117474 | snp | C | G | missense_variant c.193G>C p.Val65Leu | NA | tellurite resistance protein TehB |
| 3160246 | snp | C | T | missense_variant c.316C>T p.Leu106Phe | NA | fusaric acid resistance protein |
| 3777825 | snp | T | C | missense_variant c.151A>G p.Thr51Ala | NA | tellurite resistance protein |
| 3921241 | snp | T | C | missense_variant c.937A>G p.Met313Val | NA | multidrug resistance outer membrane protein MdtQ |
| 3921340 | snp | C | T | missense_variant c.838G>A p.Val280Ile | NA | multidrug resistance outer membrane protein MdtQ |
| 3921525 | snp | T | C | missense_variant c.653A>G p.Lys218Arg | NA | multidrug resistance outer membrane protein MdtQ |
| 3961836 | snp | A | G | missense_variant c.379A>G p.Ser127Gly | NA | phage resistance protein |
| 3962086 | snp | T | C | missense_variant c.629T>C p.Val210Ala | NA | phage resistance protein |
| 3962776 | snp | G | T | missense_variant c.1319G>T p.Arg440Leu | NA | phage resistance protein |
| 3963016 | snp | G | A | missense_variant c.1559G>A p.Arg520His | NA | phage resistance protein |
| 4793590 | snp | C | T | missense_variant c.19C>T p.Pro7Ser | NA | multidrug resistance protein MdtN |
| 4829111 | snp | T | C | missense_variant c.37T>C p.Phe13Leu | NA | copper resistance protein |
| 4829226 | snp | T | C | missense_variant c.152T>C p.Val51Ala | NA | copper resistance protein |
| 4829387 | snp | C | T | missense_variant c.313C>T p.Pro105Ser | NA | copper resistance protein |
| 4829420 | snp | G | A | missense_variant c.346G>A p.Val116Ile | NA | copper resistance protein |
| 5013460 | snp | C | G | missense_variant c.568C>G p.Gln190Glu | NA | acid-resistance membrane protein |
ID022
| GenomePosition | Type | ReferenceAllele | AlternateAllele | Consequence | AffectedGene | Product |
|---|---|---|---|---|---|---|
| 338926 | snp | G | A | missense_variant c.71G>A p.Gly24Asp | NA | 6-N-hydroxylaminopurine resistance protein |
| 338973 | snp | A | G | missense_variant c.118A>G p.Asn40Asp | NA | 6-N-hydroxylaminopurine resistance protein |
| 884672 | snp | C | T | missense_variant c.757G>A p.Val253Ile | NA | copper resistance protein |
| 885061 | snp | T | A | missense_variant c.368A>T p.Tyr123Phe | NA | copper resistance protein |
| 885118 | snp | A | G | missense_variant c.311T>C p.Val104Ala | NA | copper resistance protein |
| 1418527 | snp | T | A | missense_variant c.331A>T p.Thr111Ser | NA | oxidative-stress-resistance chaperone |
| 1418734 | snp | T | C | missense_variant c.124A>G p.Ser42Gly | NA | oxidative-stress-resistance chaperone |
| 1508179 | snp | G | A | missense_variant c.1034C>T p.Pro345Leu | NA | Fosmidomycin resistance protein |
| 2245517 | snp | G | C | missense_variant c.34G>C p.Val12Leu | NA | multiple stress resistance protein BhsA |
| 2482911 | snp | T | G | missense_variant c.786T>G p.Ile262Met | NA | quinolone resistance protein |
| 2483071 | snp | G | A | missense_variant c.946G>A p.Val316Met | NA | quinolone resistance protein |
| 3048006 | snp | C | T | missense_variant c.1282G>A p.Ala428Thr | NA | methyl viologen resistance protein SmvA |
| 3117128 | snp | A | G | missense_variant c.539T>C p.Val180Ala | NA | tellurite resistance protein TehB |
| 3160274 | snp | C | G | missense_variant c.344C>G p.Thr115Ser | NA | fusaric acid resistance protein |
| 3225577 | snp | T | G | missense_variant c.734A>C p.Glu245Ala | NA | bicyclomycin resistance protein |
| 3226250 | snp | C | T | missense_variant c.61G>A p.Gly21Ser | NA | bicyclomycin resistance protein |
| 3777825 | snp | T | C | missense_variant c.151A>G p.Thr51Ala | NA | tellurite resistance protein |
| 3921241 | snp | T | C | missense_variant c.937A>G p.Met313Val | NA | multidrug resistance outer membrane protein MdtQ |
| 3962086 | snp | T | C | missense_variant c.629T>C p.Val210Ala | NA | phage resistance protein |
| 4794098 | snp | A | G | missense_variant c.527A>G p.Lys176Arg | NA | multidrug resistance protein MdtN |
| 4794154 | snp | G | A | missense_variant c.583G>A p.Val195Ile | NA | multidrug resistance protein MdtN |
| 4829111 | snp | T | C | missense_variant c.37T>C p.Phe13Leu | NA | copper resistance protein |
| 4829210 | snp | C | A | missense_variant c.136C>A p.Gln46Lys | NA | copper resistance protein |
| 4829226 | snp | T | C | missense_variant c.152T>C p.Val51Ala | NA | copper resistance protein |
| 4829387 | snp | C | T | missense_variant c.313C>T p.Pro105Ser | NA | copper resistance protein |
ID030III
| GenomePosition | Type | ReferenceAllele | AlternateAllele | Consequence | AffectedGene | Product |
|---|---|---|---|---|---|---|
| 1508445 | snp | A | T | missense_variant c.768T>A p.His256Gln | Fosmidomycin resistance protein | |
| 4491967 | snp | C | T | missense_variant c.260C>T p.Thr87Ile | emrB | multidrug resistance protein B |
| 4492006 | snp | A | G | missense_variant c.299A>G p.Asn100Ser | emrB | multidrug resistance protein B |
ID030II
| GenomePosition | Type | ReferenceAllele | AlternateAllele | Consequence | AffectedGene | Product |
|---|---|---|---|---|---|---|
| 1508445 | snp | A | T | missense_variant c.768T>A p.His256Gln | Fosmidomycin resistance protein | |
| 4491967 | snp | C | T | missense_variant c.260C>T p.Thr87Ile | emrB | multidrug resistance protein B |
| 4492006 | snp | A | G | missense_variant c.299A>G p.Asn100Ser | emrB | multidrug resistance protein B |
ID030I
| GenomePosition | Type | ReferenceAllele | AlternateAllele | Consequence | AffectedGene | Product |
|---|---|---|---|---|---|---|
| 1508445 | snp | A | TRUE | missense_variant c.768T>A p.His256Gln | NA | Fosmidomycin resistance protein |
ID042
| GenomePosition | Type | ReferenceAllele | AlternateAllele | Consequence | AffectedGene | Product |
|---|---|---|---|---|---|---|
| 1508445 | snp | A | T | missense_variant c.768T>A p.His256Gln | NA | Fosmidomycin resistance protein |
| 1508511 | snp | C | G | missense_variant c.702G>C p.Met234Ile | NA | Fosmidomycin resistance protein |
ID049
| GenomePosition | Type | ReferenceAllele | AlternateAllele | Consequence | AffectedGene | Product |
|---|---|---|---|---|---|---|
| 1508445 | snp | A | T | missense_variant c.768T>A p.His256Gln | Fosmidomycin resistance protein | |
| 4491967 | snp | C | T | missense_variant c.260C>T p.Thr87Ile | emrB | multidrug resistance protein B |
| 4492006 | snp | A | G | missense_variant c.299A>G p.Asn100Ser | emrB | multidrug resistance protein B |
ID051II
| GenomePosition | Type | ReferenceAllele | AlternateAllele | Consequence | AffectedGene | Product |
|---|---|---|---|---|---|---|
| 146714 | snp | G | A | missense_variant c.925G>A p.Asp309Asn | acriflavine resistance protein E | |
| 146742 | snp | C | A | missense_variant c.953C>A p.Ala318Asp | acriflavine resistance protein E | |
| 146754 | snp | A | C | missense_variant c.965A>C p.Glu322Ala | acriflavine resistance protein E | |
| 188602 | snp | G | A | missense_variant c.208G>A p.Val70Ile | emrD | multidrug resistance protein D |
| 189280 | snp | A | G | missense_variant c.886A>G p.Ile296Val | emrD | multidrug resistance protein D |
| 189473 | snp | C | A | missense_variant c.1079C>A p.Thr360Asn | emrD | multidrug resistance protein D |
| 338901 | snp | G | A | missense_variant c.46G>A p.Ala16Thr | 6-N-hydroxylaminopurine resistance protein | |
| 339068 | snp | C | A | missense_variant c.213C>A p.Asp71Glu | 6-N-hydroxylaminopurine resistance protein | |
| 339086 | snp | G | T | missense_variant c.231G>T p.Glu77Asp | 6-N-hydroxylaminopurine resistance protein | |
| 339237 | snp | G | T | missense_variant c.382G>T p.Ala128Ser | 6-N-hydroxylaminopurine resistance protein | |
| 339359 | snp | T | G | missense_variant c.504T>G p.Asp168Glu | 6-N-hydroxylaminopurine resistance protein | |
| 339395 | snp | G | T | missense_variant c.540G>T p.Gln180His | 6-N-hydroxylaminopurine resistance protein | |
| 442554 | snp | C | T | missense_variant c.397G>A p.Val133Met | chloramphenical resistance permease RarD | |
| 513223 | snp | G | C | missense_variant c.407C>G p.Ala136Gly | zraP | zinc resistance protein |
| 513448 | snp | G | T | missense_variant c.182C>A p.Ala61Glu | zraP | zinc resistance protein |
| 513475 | snp | A | G | missense_variant c.155T>C p.Val52Ala | zraP | zinc resistance protein |
| 513522 | snp | C | G | missense_variant c.108G>C p.Met36Ile | zraP | zinc resistance protein |
| 513528 | snp | G | T | missense_variant c.102C>A p.Asn34Lys | zraP | zinc resistance protein |
| 513563 | snp | C | T | missense_variant c.67G>A p.Ala23Thr | zraP | zinc resistance protein |
| 513571 | snp | G | C | missense_variant c.59C>G p.Ala20Gly | zraP | zinc resistance protein |
| 513588 | snp | A | T | missense_variant c.42T>A p.Phe14Leu | zraP | zinc resistance protein |
| 884590 | snp | C | T | missense_variant c.839G>A p.Gly280Asp | copper resistance protein | |
| 884806 | snp | A | G | missense_variant c.623T>C p.Met208Thr | copper resistance protein | |
| 884975 | snp | T | G | missense_variant c.454A>C p.Lys152Gln | copper resistance protein | |
| 885118 | snp | A | G | missense_variant c.311T>C p.Val104Ala | copper resistance protein | |
| 1418447 | snp | C | A | missense_variant c.411G>T p.Glu137Asp | oxidative-stress-resistance chaperone | |
| 1418602 | snp | T | G | missense_variant c.256A>C p.Thr86Pro | oxidative-stress-resistance chaperone | |
| 1418734 | snp | T | C | missense_variant c.124A>G p.Ser42Gly | oxidative-stress-resistance chaperone | |
| 1508432 | snp | T | A | missense_variant c.781A>T p.Thr261Ser | Fosmidomycin resistance protein | |
| 1508544 | snp | C | A | missense_variant c.669G>T p.Lys223Asn | Fosmidomycin resistance protein | |
| 1509185 | snp | A | C | missense_variant c.28T>G p.Leu10Val | Fosmidomycin resistance protein | |
| 2482166 | snp | A | G | missense_variant c.41A>G p.Asn14Ser | quinolone resistance protein | |
| 2482402 | snp | G | A | missense_variant c.277G>A p.Val93Ile | quinolone resistance protein | |
| 2482835 | snp | C | G | missense_variant c.710C>G p.Thr237Ser | quinolone resistance protein | |
| 2483199 | snp | A | T | missense_variant c.1074A>T p.Glu358Asp | quinolone resistance protein | |
| 2483456 | snp | T | C | missense_variant c.1331T>C p.Val444Ala | quinolone resistance protein | |
| 3032783 | snp | G | A | missense_variant c.8G>A p.Ser3Asn | glyoxalase/bleomycin resistance protein/dioxygenase | |
| 3048036 | snp | A | T | missense_variant c.1252T>A p.Ser418Thr | methyl viologen resistance protein SmvA | |
| 3048391 | snp | T | C | missense_variant c.897A>G p.Ile299Met | methyl viologen resistance protein SmvA | |
| 3048600 | snp | G | T | missense_variant c.688C>A p.Leu230Ile | methyl viologen resistance protein SmvA | |
| 3048690 | snp | C | T | missense_variant c.598G>A p.Val200Ile | methyl viologen resistance protein SmvA | |
| 3048718 | snp | T | G | missense_variant c.570A>C p.Glu190Asp | methyl viologen resistance protein SmvA | |
| 3049041 | snp | T | C | missense_variant c.247A>G p.Ile83Val | methyl viologen resistance protein SmvA | |
| 3117314 | snp | G | C | missense_variant c.353C>G p.Ala118Gly | tellurite resistance protein TehB | |
| 3117474 | snp | C | T | missense_variant c.193G>A p.Val65Ile | tellurite resistance protein TehB | |
| 3117507 | snp | C | T | missense_variant c.160G>A p.Ala54Thr | tellurite resistance protein TehB | |
| 3117636 | snp | G | C | missense_variant c.31C>G p.Gln11Glu | tellurite resistance protein TehB | |
| 3161233 | snp | G | A | missense_variant c.1303G>A p.Val435Ile | fusaric acid resistance protein | |
| 3161362 | snp | G | T | missense_variant c.1432G>T p.Ala478Ser | fusaric acid resistance protein | |
| 3161816 | snp | A | T | missense_variant c.1886A>T p.Gln629Leu | fusaric acid resistance protein | |
| 3191351 | snp | A | G | missense_variant c.298A>G p.Ile100Val | bleomycin resistance protein | |
| 3225577 | snp | T | G | missense_variant c.734A>C p.Glu245Ala | bicyclomycin resistance protein | |
| 3777825 | snp | T | C | missense_variant c.151A>G p.Thr51Ala | tellurite resistance protein | |
| 3921241 | snp | T | C | missense_variant c.937A>G p.Met313Val | multidrug resistance outer membrane protein MdtQ | |
| 3921433 | snp | T | C | missense_variant c.745A>G p.Thr249Ala | multidrug resistance outer membrane protein MdtQ | |
| 3961497 | snp | T | A | missense_variant c.40T>A p.Leu14Ile | phage resistance protein | |
| 3961797 | snp | A | G | missense_variant c.340A>G p.Asn114Asp | phage resistance protein | |
| 3961810 | snp | G | C | missense_variant c.353G>C p.Ser118Thr | phage resistance protein | |
| 3962086 | snp | T | C | missense_variant c.629T>C p.Val210Ala | phage resistance protein | |
| 3962100 | snp | G | A | missense_variant c.643G>A p.Ala215Thr | phage resistance protein | |
| 3962292 | snp | A | G | missense_variant c.835A>G p.Ile279Val | phage resistance protein | |
| 3962466 | snp | A | C | missense_variant c.1009A>C p.Ser337Arg | phage resistance protein | |
| 4441278 | snp | C | G | missense_variant c.38C>G p.Thr13Ser | acriflavin resistance protein AcrA | |
| 4442311 | snp | T | G | missense_variant c.1071T>G p.Asn357Lys | acriflavin resistance protein AcrA | |
| 4442366 | snp | C | G | missense_variant c.1126C>G p.Pro376Ala | acriflavin resistance protein AcrA | |
| 4442396 | snp | T | C | missense_variant c.1156T>C p.Ser386Pro | acriflavin resistance protein AcrA | |
| 4442405 | snp | A | G | missense_variant c.1165A>G p.Thr389Ala | acriflavin resistance protein AcrA | |
| 4794098 | snp | A | G | missense_variant c.527A>G p.Lys176Arg | multidrug resistance protein MdtN | |
| 4794154 | snp | G | A | missense_variant c.583G>A p.Val195Ile | multidrug resistance protein MdtN | |
| 4794454 | snp | G | A | missense_variant c.883G>A p.Val295Ile | multidrug resistance protein MdtN | |
| 4829111 | snp | T | C | missense_variant c.37T>C p.Phe13Leu | copper resistance protein | |
| 4829214 | snp | A | C | missense_variant c.140A>C p.Asn47Thr | copper resistance protein | |
| 5013217 | snp | A | T | missense_variant c.325A>T p.Ile109Phe | acid-resistance membrane protein | |
| 5013274 | snp | C | A | missense_variant c.382C>A p.Gln128Lys | acid-resistance membrane protein | |
| 5013331 | snp | C | A | missense_variant c.439C>A p.Leu147Ile | acid-resistance membrane protein | |
| 5013461 | snp | A | G | missense_variant c.569A>G p.Gln190Arg | acid-resistance membrane protein | |
| 5013741 | snp | G | C | missense_variant c.247G>C p.Glu83Gln | acid-resistance protein |
ID064
| GenomePosition | Type | ReferenceAllele | AlternateAllele | Consequence | AffectedGene | Product |
|---|---|---|---|---|---|---|
| 145850 | snp | G | C | missense_variant c.61G>C p.Ala21Pro | acriflavine resistance protein E | |
| 189011 | snp | C | A | missense_variant c.617C>A p.Thr206Asn | emrD | multidrug resistance protein D |
| 885118 | snp | A | G | missense_variant c.311T>C p.Val104Ala | copper resistance protein | |
| 1418734 | snp | T | C | missense_variant c.124A>G p.Ser42Gly | oxidative-stress-resistance chaperone | |
| 1508447 | snp | G | T | missense_variant c.766C>A p.His256Asn | Fosmidomycin resistance protein | |
| 2482315 | snp | A | T | missense_variant c.190A>T p.Ser64Cys | quinolone resistance protein | |
| 3117128 | snp | A | G | missense_variant c.539T>C p.Val180Ala | tellurite resistance protein TehB | |
| 3225577 | snp | T | G | missense_variant c.734A>C p.Glu245Ala | bicyclomycin resistance protein | |
| 3777825 | snp | T | C | missense_variant c.151A>G p.Thr51Ala | tellurite resistance protein | |
| 3921241 | snp | T | C | missense_variant c.937A>G p.Met313Val | multidrug resistance outer membrane protein MdtQ | |
| 3961586 | snp | C | A | missense_variant c.129C>A p.Phe43Leu | phage resistance protein | |
| 3962086 | snp | T | C | missense_variant c.629T>C p.Val210Ala | phage resistance protein | |
| 4793590 | snp | C | T | missense_variant c.19C>T p.Pro7Ser | multidrug resistance protein MdtN | |
| 4793650 | snp | A | C | missense_variant c.79A>C p.Ile27Leu | multidrug resistance protein MdtN | |
| 4829111 | snp | T | C | missense_variant c.37T>C p.Phe13Leu | copper resistance protein | |
| 4829226 | snp | T | C | missense_variant c.152T>C p.Val51Ala | copper resistance protein | |
| 4829387 | snp | C | T | missense_variant c.313C>T p.Pro105Ser | copper resistance protein | |
| 5013460 | snp | C | G | missense_variant c.568C>G p.Gln190Glu | acid-resistance membrane protein |
ID100
| GenomePosition | Type | ReferenceAllele | AlternateAllele | Consequence | AffectedGene | Product |
|---|---|---|---|---|---|---|
| 338902 | snp | C | T | missense_variant c.47C>T p.Ala16Val | NA | 6-N-hydroxylaminopurine resistance protein |
| 338926 | snp | G | A | missense_variant c.71G>A p.Gly24Asp | NA | 6-N-hydroxylaminopurine resistance protein |
| 338973 | snp | A | G | missense_variant c.118A>G p.Asn40Asp | NA | 6-N-hydroxylaminopurine resistance protein |
| 442551 | snp | T | G | missense_variant c.400A>C p.Ile134Leu | NA | chloramphenical resistance permease RarD |
| 884806 | snp | A | G | missense_variant c.623T>C p.Met208Thr | NA | copper resistance protein |
| 885118 | snp | A | G | missense_variant c.311T>C p.Val104Ala | NA | copper resistance protein |
| 1735636 | snp | C | G | missense_variant c.346G>C p.Val116Leu | NA | camphor resistance protein CrcB |
| 2210939 | snp | C | T | missense_variant c.141G>A p.Met47Ile | NA | multidrug resistance protein MdtH |
| 2483071 | snp | G | A | missense_variant c.946G>A p.Val316Met | NA | quinolone resistance protein |
| 2483506 | snp | T | C | missense_variant c.1381T>C p.Ser461Pro | NA | quinolone resistance protein |
| 3117128 | snp | A | G | missense_variant c.539T>C p.Val180Ala | NA | tellurite resistance protein TehB |
| 3160939 | snp | G | A | missense_variant c.1009G>A p.Ala337Thr | NA | fusaric acid resistance protein |
| 3191246 | snp | A | T | missense_variant c.193A>T p.Ser65Cys | NA | bleomycin resistance protein |
| 3191252 | snp | G | A | missense_variant c.199G>A p.Asp67Asn | NA | bleomycin resistance protein |
| 3225466 | snp | G | C | missense_variant c.845C>G p.Ala282Gly | NA | bicyclomycin resistance protein |
| 3225577 | snp | T | G | missense_variant c.734A>C p.Glu245Ala | NA | bicyclomycin resistance protein |
| 3777825 | snp | T | C | missense_variant c.151A>G p.Thr51Ala | NA | tellurite resistance protein |
| 3921077 | snp | G | C | missense_variant c.1101C>G p.Asn367Lys | NA | multidrug resistance outer membrane protein MdtQ |
| 3921241 | snp | T | C | missense_variant c.937A>G p.Met313Val | NA | multidrug resistance outer membrane protein MdtQ |
| 3961675 | snp | A | C | missense_variant c.218A>C p.Asp73Ala | NA | phage resistance protein |
| 3962086 | snp | T | C | missense_variant c.629T>C p.Val210Ala | NA | phage resistance protein |
| 4441286 | snp | G | T | missense_variant c.46G>T p.Gly16Cys | NA | acriflavin resistance protein AcrA |
| 4793590 | snp | C | T | missense_variant c.19C>T p.Pro7Ser | NA | multidrug resistance protein MdtN |
| 4829111 | snp | T | C | missense_variant c.37T>C p.Phe13Leu | NA | copper resistance protein |
| 4829226 | snp | T | C | missense_variant c.152T>C p.Val51Ala | NA | copper resistance protein |
| 5013422 | snp | T | C | missense_variant c.530T>C p.Ile177Thr | NA | acid-resistance membrane protein |
Phylogenetic inference
Phylogenetic inference based on vcf SNPS
Rectangular (phylogram)
Circular (phylogram)
Circular (cladogram)
Antimicrobial Resistance Profiling
| Field | Description |
|---|---|
| Contig | Contig name where the gene was found |
| Start | Start position of the gene within the contig |
| End | End position of the gene within the contig |
| Gene | Antibiotic resistance gene |
| Gaps | Gaps in subject (genome) and query (antibiotic resistance gene) |
| Coverage | Proportion (%) of the gene covered |
| Identity | Proportion (%) of exact nucleotide matches |
| Accession | Accesion number of the antibiotic resistance gene |
| Product | Antibiotic resistance gene product |
| Resistance | Antibiotic that the gene confers resistance to |
Select the samples and the database
ID014
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00234 | 2259 | 2858 | aac(6’)-Ib-cr_1 | 0/0 | 100.0 | 100.0 | DQ303918 | aac(6’)-Ib-cr | Ciprofloxacin |
| contig00234 | 78 | 923 | aadA16_1 | 0/0 | 100.0 | 99.6 | EU675686 | aadA16 | Streptomycin |
| contig00125 | 7934 | 8736 | aph(3’’)-Ib_2 | 0/0 | 99.9 | 100.0 | AF024602 | aph(3’’)-Ib | Streptomycin |
| contig00125 | 7098 | 7934 | aph(6)-Id_1 | 0/0 | 100.0 | 100.0 | M28829 | aph(6)-Id | Streptomycin |
| contig00234 | 1710 | 2202 | ARR-3_4 | 0/0 | 90.8 | 99.2 | FM207631 | ARR-3 | |
| contig00197 | 3145 | 4020 | blaCTX-M-15_1 | 0/0 | 100.0 | 100.0 | AY044436 | blaCTX-M-15 | Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin |
| contig00146 | 9088 | 9948 | blaSHV-133_1 | 0/0 | 100.0 | 99.8 | AB551737 | blaSHV-133 | |
| contig00326 | 91 | 732 | catA2_1 | 0/0 | 100.0 | 96.1 | X53796 | catA2 | Chloramphenicol |
| contig00234 | 1104 | 1577 | dfrA27_1 | 0/0 | 100.0 | 100.0 | FJ459817 | dfrA27 | Trimethoprim |
| contig00277 | 2116 | 2535 | fosA_3 | 0/0 | 100.0 | 99.3 | ACWO01000079 | fosA | Fosfomycin |
| contig00019 | 42100 | 43275 | oqxA_1 | 0/0 | 100.0 | 99.2 | EU370913 | oqxA | Nalidixic_acid, Ciprofloxacin |
| contig00019 | 43299 | 46451 | oqxB_1 | 0/0 | 100.0 | 98.7 | EU370913 | oqxB | Nalidixic_acid, Ciprofloxacin |
| contig00227 | 192 | 836 | qnrB6_2 | 0/0 | 100.0 | 100.0 | EF523819 | qnrB6 | Ciprofloxacin |
| contig00227 | 4247 | 5113 | sul1_5 | 0/0 | 100.0 | 99.9 | EU780013 | sul1 | Sulfamethoxazole |
| contig00240 | 431 | 1246 | sul2_2 | 0/0 | 100.0 | 100.0 | AY034138 | sul2 | Sulfamethoxazole |
| contig00264 | 1641 | 2825 | tet(D)_1 | 0/0 | 100.0 | 100.0 | AF467077 | tet(D) | Doxycycline, Tetracycline |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00234 | 2259 | 2858 | AAC(6’)-Ib-cr | 0/0 | 100.0 | 100.0 | DQ303918:0-600 | AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously | aminoglycoside, fluoroquinolone |
| contig00234 | 78 | 923 | aadA16 | 0/0 | 100.0 | 99.6 | EU675686:3196-4042 | aadA16 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in E. coli V. cholerae and K. pneumoniae | aminoglycoside |
| contig00125 | 7934 | 8737 | APH(3’’)-Ib | 0/0 | 100.0 | 99.9 | AF313472:15593-16397 | APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. | aminoglycoside |
| contig00125 | 7098 | 7934 | APH(6)-Id | 0/0 | 100.0 | 99.9 | AF024602:3155-3992 | APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum | aminoglycoside |
| contig00234 | 1710 | 2162 | arr-3 | 0/0 | 100.0 | 100.0 | EU675686:1956-2409 | arr-3 is a plasmid-encoded ribosyltransferase found in Vibrio fluvialis | rifamycin |
| contig00326 | 91 | 732 | catII_from_Escherichia_coli_K-12 | 0/0 | 100.0 | 96.1 | X53796.1:186-828 | catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. | phenicol |
| contig00197 | 3145 | 4020 | CTX-M-15 | 0/0 | 100.0 | 100.0 | AY044436:1435-2311 | CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family | cephalosporin |
| contig00234 | 1104 | 1577 | dfrA27 | 0/0 | 100.0 | 100.0 | KP076293.1:2347-2821 | A dihydrofolate reductase and trimethoprim resistance gene from non-O1 non-O139 Vibrio cholerae | diaminopyrimidine |
| contig00277 | 2116 | 2535 | FosA6 | 0/0 | 100.0 | 99.0 | KU254579.1:59421-59841 | fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. | fosfomycin |
| contig00133 | 8234 | 9427 | Klebsiella_pneumoniae_acrA | 2/3 | 99.8 | 97.7 | AJ318073.1:793-1990 | AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00108 | 12138 | 12500 | Klebsiella_pneumoniae_KpnE | 0/0 | 100.0 | 99.5 | AP006725.1:2483889-2484252 | KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan | aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline |
| contig00108 | 11822 | 12151 | Klebsiella_pneumoniae_KpnF | 0/0 | 100.0 | 99.7 | AP006725.1:2484238-2484568 | KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. | aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline |
| contig00175 | 3992 | 5164 | Klebsiella_pneumoniae_KpnG | 0/0 | 100.0 | 99.4 | ACWO01000051.1:22092-23265 | KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin | aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide |
| contig00063 | 11484 | 12608 | Klebsiella_pneumoniae_OmpK37 | 0/0 | 100.0 | 99.6 | AJ011502.1:300-1425 | Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem |
| contig00019 | 42100 | 43275 | oqxA | 0/0 | 100.0 | 99.2 | EU370913.1:46651-47827 | RND efflux pump conferring resistance to fluoroquinolone | diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline |
| contig00019 | 43299 | 46451 | oqxB | 0/0 | 100.0 | 98.7 | EU370913.1:47850-51003 | RND efflux pump conferring resistance to fluoroquinolone | diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline |
| contig00227 | 156 | 836 | QnrB17 | 0/0 | 100.0 | 99.8 | AM919398:0-681 | QnrB17 is a plasmid-mediated quinolone resistance protein found in Citrobacter freundii | fluoroquinolone |
| contig00146 | 9088 | 9948 | SHV-133 | 0/0 | 100.0 | 99.8 | AB551737:14-875 | SHV-133 is a beta-lactamase. | carbapenem, cephalosporin, penam |
| contig00227 | 4247 | 5086 | sul1 | 0/0 | 100.0 | 100.0 | JF969163:1053-1893 | Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. | sulfonamide |
| contig00240 | 431 | 1246 | sul2 | 0/0 | 100.0 | 100.0 | AY055428.1:21084-20268 | Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. | sulfonamide |
| contig00264 | 1641 | 2825 | tet(D) | 0/0 | 100.0 | 100.0 | AF467077.1:163-1348 | TetD is a tetracycline efflux pump found exclusively in Gram-negative bacteria. | tetracycline |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00234 | 78 | 923 | (AGly)aadA16 | 0/0 | 100 | 99.6 | EU675686:3197-4042 | (AGly)aadA16 | NA |
| contig00125 | 7934 | 8737 | (AGly)strA | 0/0 | 100 | 100.0 | AB366441:22458-23261 | (AGly)strA | NA |
| contig00125 | 7098 | 7934 | (AGly)strB | 0/0 | 100 | 100.0 | FJ474091:264-1100 | (AGly)strB | NA |
| contig00051 | 18625 | 19785 | (Bla)ampH | 0/0 | 100 | 98.8 | CP003785:4208384-4209544 | (Bla)ampH | NA |
| contig00197 | 3145 | 4020 | (Bla)blaCTX-M-15 | 0/0 | 100 | 100.0 | JQ686199:261-1136 | (Bla)blaCTX-M-15 | NA |
| contig00146 | 9088 | 9948 | (Bla)blaSHV-133 | 0/0 | 100 | 99.8 | AB551737:15-875 | (Bla)blaSHV-133 | NA |
| contig00277 | 2116 | 2535 | (Fcyn)FosA6 | 0/0 | 100 | 99.0 | KU254579:59422-59841 | (Fcyn)FosA6 | NA |
| contig00019 | 42100 | 43275 | (Flq)OqxA | 0/0 | 100 | 99.2 | EU370913:46652-47827 | (Flq)OqxA | NA |
| contig00019 | 43299 | 46451 | (Flq)OqxBgb | 0/0 | 100 | 98.7 | EU370913:47851-51003 | (Flq)OqxBgb | NA |
| contig00227 | 156 | 836 | (Flq)qnrB17 | 0/0 | 100 | 99.8 | AM919398:1-681 | (Flq)qnrB17 | NA |
| contig00326 | 91 | 732 | (Phe)catA2 | 0/0 | 100 | 96.1 | X53796:187-903 | (Phe)catA2 | NA |
| contig00234 | 1710 | 2162 | (Rif)arr3 | 0/0 | 100 | 100.0 | JF806499:1353-1805 | (Rif)arr3 | NA |
| contig00227 | 4247 | 5086 | (Sul)sul1 | 0/0 | 100 | 100.0 | AF071413:6700-7539 | (Sul)sul1 | NA |
| contig00240 | 431 | 1246 | (Sul)sul2 | 0/0 | 100 | 100.0 | EU360945:1617-2432 | (Sul)sul2 | NA |
| contig00264 | 1641 | 2825 | (Tet)tetD | 0/0 | 100 | 100.0 | AB089602:1521-2705 | (Tet)tetD | NA |
| contig00234 | 1104 | 1577 | (Tmt)dfrA27 | 0/0 | 100 | 100.0 | EU675686:2543-3016 | (Tmt)dfrA27 | NA |
NCBI
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00234 | 2259 | 2813 | aac(6’)-Ib-D181Y | 0/0 | 100 | 99.8 | NG_067946.1 | AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase | AMIKACIN, KANAMYCIN, TOBRAMYCIN |
| contig00234 | 78 | 923 | aadA16 | 0/0 | 100 | 100.0 | NG_047339.1 | ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 | STREPTOMYCIN |
| contig00125 | 7934 | 8761 | aph(3’’)-Ib | 0/0 | 100 | 99.9 | NG_056002.2 | aminoglycoside O-phosphotransferase APH(3’’)-Ib | STREPTOMYCIN |
| contig00125 | 7098 | 7934 | aph(6)-Id | 0/0 | 100 | 100.0 | NG_047464.1 | aminoglycoside O-phosphotransferase APH(6)-Id | STREPTOMYCIN |
| contig00234 | 1710 | 2162 | arr-3 | 0/0 | 100 | 100.0 | NG_048581.1 | NAD(+)–rifampin ADP-ribosyltransferase Arr-3 | RIFAMYCIN |
| contig00197 | 3145 | 4020 | blaCTX-M-15 | 0/0 | 100 | 100.0 | NG_048935.1 | class A extended-spectrum beta-lactamase CTX-M-15 | CEPHALOSPORIN |
| contig00146 | 9088 | 9948 | blaSHV-220 | 0/0 | 100 | 100.0 | NG_062292.1 | class A beta-lactamase SHV-220 | BETA-LACTAM |
| contig00326 | 91 | 732 | catA2 | 0/0 | 100 | 100.0 | NG_047596.1 | type A-2 chloramphenicol O-acetyltransferase CatII | CHLORAMPHENICOL |
| contig00234 | 1104 | 1577 | dfrA27 | 0/0 | 100 | 100.0 | NG_047723.1 | trimethoprim-resistant dihydrofolate reductase DfrA27 | TRIMETHOPRIM |
| contig00277 | 2116 | 2535 | fosA_gen | 0/0 | 100 | 99.3 | NG_047884.1 | FosA family fosfomycin resistance glutathione transferase | FOSFOMYCIN |
| contig00019 | 42100 | 43275 | oqxA10 | 0/0 | 100 | 99.7 | NG_050418.1 | multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 | PHENICOL, QUINOLONE |
| contig00019 | 43299 | 46451 | oqxB19 | 0/0 | 100 | 99.3 | NG_050437.1 | multidrug efflux RND transporter permease subunit OqxB19 | PHENICOL, QUINOLONE |
| contig00227 | 192 | 836 | qnrB6 | 0/0 | 100 | 99.8 | NG_050523.1 | quinolone resistance pentapeptide repeat protein QnrB6 | QUINOLONE |
| contig00227 | 4247 | 5086 | sul1 | 0/0 | 100 | 100.0 | NG_048082.1 | sulfonamide-resistant dihydropteroate synthase Sul1 | SULFONAMIDE |
| contig00240 | 431 | 1246 | sul2 | 0/0 | 100 | 100.0 | NG_051852.1 | sulfonamide-resistant dihydropteroate synthase Sul2 | SULFONAMIDE |
| contig00264 | 1641 | 2825 | tet(D) | 0/0 | 100 | 99.9 | NG_048184.1 | tetracycline efflux MFS transporter Tet(D) | TETRACYCLINE |
MEGARES
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00133 | 8234 | 9427 | ACRA | 2/3 | 99.8 | 97.7 | MEG_400 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA | NA |
| contig00051 | 18625 | 19785 | AMPH | 0/0 | 100.0 | 98.8 | MEG_730 | Drugs:betalactams:Penicillin_binding_protein:AMPH | NA |
| contig00234 | 78 | 923 | ANT3-DPRIME | 0/0 | 100.0 | 100.0 | MEG_763 | Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME | NA |
| contig00125 | 7934 | 8761 | APH3-DPRIME | 0/0 | 100.0 | 99.9 | MEG_1019 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME | NA |
| contig00125 | 7098 | 7934 | APH6 | 0/0 | 100.0 | 100.0 | MEG_1086 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 | NA |
| contig00234 | 1710 | 2202 | ARR | 0/0 | 90.8 | 99.2 | MEG_1135 | Drugs:Rifampin:Rifampin_ADP-ribosyltransferase_Arr:ARR | NA |
| contig00261 | 1644 | 3467 | ASMA | 0/0 | 100.0 | 99.6 | MEG_1179 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA | NA |
| contig00326 | 91 | 732 | CATA | 0/0 | 100.0 | 100.0 | MEG_1568 | Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA | NA |
| contig00009 | 10360 | 11058 | CPXAR | 0/0 | 100.0 | 99.7 | MEG_2116 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00009 | 11055 | 12428 | CPXAR | 0/0 | 100.0 | 99.4 | MEG_2115 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00081 | 17618 | 18559 | CTX | 1/1 | 99.8 | 95.2 | MEG_2435 | Drugs:betalactams:Class_A_betalactamases:CTX | NA |
| contig00104 | 5872 | 6814 | CTX | 0/0 | 100.0 | 95.4 | MEG_2435 | Drugs:betalactams:Class_A_betalactamases:CTX | NA |
| contig00126 | 4849 | 5791 | CTX | 0/0 | 100.0 | 96.8 | MEG_2435 | Drugs:betalactams:Class_A_betalactamases:CTX | NA |
| contig00234 | 1104 | 1577 | DFRA | 0/0 | 100.0 | 100.0 | MEG_2554 | Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA | NA |
| contig00277 | 2116 | 2535 | FOSA | 0/0 | 100.0 | 99.3 | MEG_2993 | Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA | NA |
| contig00002 | 54728 | 55960 | KDEA | 0/0 | 100.0 | 99.7 | MEG_3447 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KDEA | NA |
| contig00175 | 3992 | 5164 | KPN | 0/0 | 100.0 | 99.4 | MEG_3512 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KPN | NA |
| contig00108 | 12138 | 12500 | KPNE | 0/0 | 100.0 | 99.5 | MEG_3514 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNE | NA |
| contig00108 | 11822 | 12151 | KPNF | 0/0 | 100.0 | 99.7 | MEG_3515 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNF | NA |
| contig00076 | 19791 | 20888 | KPNO | 0/0 | 100.0 | 100.0 | MEG_3516 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNO | NA |
| contig00063 | 11484 | 12608 | OMP37 | 0/0 | 100.0 | 99.6 | MEG_4283 | Drugs:betalactams:Mutant_porin_proteins:OMP37 | NA |
| contig00019 | 42100 | 43275 | OQXA | 0/0 | 100.0 | 99.7 | MEG_4326 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXA | NA |
| contig00019 | 43299 | 46451 | OQXB | 0/0 | 100.0 | 99.3 | MEG_4343 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXB | NA |
| contig00007 | 8773 | 10239 | PHOR | 0/0 | 100.0 | 99.9 | MEG_5786 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_regulator:PHOR | NA |
| contig00227 | 5080 | 5427 | QACEDELTA1 | 0/0 | 100.0 | 100.0 | MEG_5829 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:QACEDELTA1 | NA |
| contig00227 | 156 | 836 | QNRB | 0/0 | 100.0 | 100.0 | MEG_5999 | Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRB | NA |
| contig00146 | 9043 | 10045 | SHV | 1/1 | 99.6 | 98.6 | MEG_6428 | Drugs:betalactams:Class_A_betalactamases:SHV | NA |
| contig00227 | 4247 | 5173 | SULI | 0/0 | 100.0 | 100.0 | MEG_6616 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI | NA |
| contig00240 | 431 | 1246 | SULII | 0/0 | 100.0 | 100.0 | MEG_6617 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII | NA |
| contig00264 | 1641 | 2825 | TETC | 0/0 | 100.0 | 99.9 | MEG_7061 | Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETC | NA |
ID022
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00312 | 1693 | 2553 | aac(3)-IIa_1 | 0/0 | 100 | 99.8 | X51534 | aac(3)-IIa | Gentamicin, Tobramycin |
| contig00322 | 1540 | 2139 | aac(6’)-Ib-cr_1 | 0/0 | 100 | 100.0 | DQ303918 | aac(6’)-Ib-cr | Ciprofloxacin |
| contig00180 | 2212 | 3000 | aadA5_1 | 0/0 | 100 | 100.0 | AF137361 | aadA5 | Streptomycin |
| contig00057 | 24437 | 25240 | aph(3’’)-Ib_5 | 0/0 | 100 | 100.0 | AF321551 | aph(3’’)-Ib | Streptomycin |
| contig00390 | 134 | 949 | aph(3’)-Ia_1 | 0/0 | 100 | 100.0 | V00359 | aph(3’)-Ia | |
| contig00057 | 23601 | 24437 | aph(6)-Id_1 | 0/0 | 100 | 100.0 | M28829 | aph(6)-Id | Streptomycin |
| contig00057 | 5876 | 6751 | blaCTX-M-15_1 | 0/0 | 100 | 100.0 | AY044436 | blaCTX-M-15 | Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin |
| contig00322 | 579 | 1409 | blaOXA-1_1 | 0/0 | 100 | 100.0 | HQ170510 | blaOXA-1 | Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam |
| contig00236 | 3986 | 4852 | blaSHV-187_1 | 0/0 | 100 | 99.5 | LN515533 | blaSHV-187 | |
| contig00057 | 9573 | 10433 | blaTEM-1C_1 | 0/0 | 100 | 100.0 | FJ560503 | blaTEM-1C | Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin |
| contig00363 | 89 | 730 | catA2_1 | 0/0 | 100 | 96.1 | X53796 | catA2 | Chloramphenicol |
| contig00180 | 1608 | 2081 | dfrA17_1 | 0/0 | 100 | 100.0 | FJ460238 | dfrA17 | Trimethoprim |
| contig00146 | 10744 | 11163 | fosA6_1 | 0/0 | 97 | 99.3 | KU254579 | fosA6 | Fosfomycin |
| contig00374 | 68 | 989 | mph(A)_2 | 1/1 | 100 | 99.7 | U36578 | mph(A) | Erythromycin, Azithromycin, Spiramycin, Telithromycin |
| contig00031 | 10059 | 11234 | oqxA_1 | 0/0 | 100 | 99.7 | EU370913 | oqxA | Nalidixic_acid, Ciprofloxacin |
| contig00031 | 6883 | 10035 | oqxB_1 | 0/0 | 100 | 98.8 | EU370913 | oqxB | Nalidixic_acid, Ciprofloxacin |
| contig00057 | 11911 | 12567 | qnrS1_1 | 0/0 | 100 | 100.0 | AB187515 | qnrS1 | Ciprofloxacin |
| contig00180 | 3520 | 4386 | sul1_5 | 0/0 | 100 | 99.9 | EU780013 | sul1 | Sulfamethoxazole |
| contig00057 | 25301 | 26116 | sul2_2 | 0/0 | 100 | 100.0 | AY034138 | sul2 | Sulfamethoxazole |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00312 | 1693 | 2553 | AAC(3)-IIe | 0/0 | 100.0 | 99.5 | EU022315.1:0-861 | AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli | aminoglycoside |
| contig00322 | 1540 | 2139 | AAC(6’)-Ib-cr | 0/0 | 100.0 | 100.0 | DQ303918:0-600 | AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously | aminoglycoside, fluoroquinolone |
| contig00180 | 2212 | 3000 | aadA5 | 0/0 | 100.0 | 100.0 | AF137361:63-852 | aadA5 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids transposons and integrons in E. coli K. pneumoniae Kluyvera georgiana P. aeruginosa and E. cloacae | aminoglycoside |
| contig00057 | 24437 | 25240 | APH(3’’)-Ib | 0/0 | 100.0 | 99.8 | AF313472:15593-16397 | APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. | aminoglycoside |
| contig00390 | 136 | 949 | APH(3’)-Ia | 0/0 | 99.8 | 99.4 | BX664015.1:103833-103017 | APH(3’)-Ia is a transposon-encoded aminoglycoside phosphotransferase in E. coli and S. enterica. It is identical at the protein sequence to APH(3’)-Ic an aminoglycoside phosphotransferase encoded by plasmids transposons and genomic islands in K. pneumoniae A. baumannii S. marcescens Corynebacterium spp. Photobacterium spp. and Citrobacter spp. | aminoglycoside |
| contig00057 | 23601 | 24437 | APH(6)-Id | 0/0 | 100.0 | 99.9 | AF024602:3155-3992 | APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum | aminoglycoside |
| contig00363 | 89 | 730 | catII_from_Escherichia_coli_K-12 | 0/0 | 100.0 | 96.1 | X53796.1:186-828 | catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. | phenicol |
| contig00057 | 5876 | 6751 | CTX-M-15 | 0/0 | 100.0 | 100.0 | AY044436:1435-2311 | CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family | cephalosporin |
| contig00180 | 1608 | 2081 | dfrA17 | 0/0 | 100.0 | 100.0 | DQ838665:0-474 | dfrA17 is an integron-encoded dihydrofolate reductase found in Escherichia coli | diaminopyrimidine |
| contig00146 | 10744 | 11163 | FosA6 | 0/0 | 100.0 | 99.3 | KU254579.1:59421-59841 | fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. | fosfomycin |
| contig00004 | 8100 | 9293 | Klebsiella_pneumoniae_acrA | 2/3 | 99.8 | 97.8 | AJ318073.1:793-1990 | AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00097 | 14925 | 15287 | Klebsiella_pneumoniae_KpnE | 0/0 | 100.0 | 98.9 | AP006725.1:2483889-2484252 | KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan | aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline |
| contig00097 | 14609 | 14938 | Klebsiella_pneumoniae_KpnF | 0/0 | 100.0 | 98.8 | AP006725.1:2484238-2484568 | KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. | aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline |
| contig00181 | 4002 | 5174 | Klebsiella_pneumoniae_KpnG | 0/0 | 100.0 | 99.1 | ACWO01000051.1:22092-23265 | KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin | aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide |
| contig00125 | 4465 | 5589 | Klebsiella_pneumoniae_OmpK37 | 0/0 | 100.0 | 99.2 | AJ011502.1:300-1425 | Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem |
| contig00374 | 68 | 973 | mphA | 0/0 | 100.0 | 100.0 | D16251.1:2531-1625 | The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. | macrolide |
| contig00031 | 10059 | 11234 | oqxA | 0/0 | 100.0 | 99.7 | EU370913.1:46651-47827 | RND efflux pump conferring resistance to fluoroquinolone | diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline |
| contig00031 | 6883 | 10035 | oqxB | 0/0 | 100.0 | 98.8 | EU370913.1:47850-51003 | RND efflux pump conferring resistance to fluoroquinolone | diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline |
| contig00322 | 579 | 1409 | OXA-1 | 0/0 | 100.0 | 100.0 | JN420336.1:2230-1399 | OXA-1 is a beta-lactamase found in E. coli | cephalosporin, penam |
| contig00057 | 11911 | 12567 | QnrS1 | 0/0 | 100.0 | 100.0 | DQ485529.1:0-657 | QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri | fluoroquinolone |
| contig00236 | 3986 | 4852 | SHV-187 | 0/0 | 100.0 | 99.5 | LN515533:0-867 | From the Lahey list of beta-lactamases. | carbapenem, cephalosporin, penam |
| contig00180 | 3547 | 4386 | sul1 | 0/0 | 100.0 | 100.0 | JF969163:1053-1893 | Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. | sulfonamide |
| contig00057 | 25301 | 26116 | sul2 | 0/0 | 100.0 | 100.0 | AY055428.1:21084-20268 | Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. | sulfonamide |
| contig00057 | 9573 | 10433 | TEM-1 | 0/0 | 100.0 | 99.9 | AL513383:161910-162771 | TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. | cephalosporin, monobactam, penam, penem |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00312 | 1693 | 2553 | (AGly)aac3-IIa | 0/0 | 100 | 99.8 | X51534:91-951 | (AGly)aac3-IIa | NA |
| contig00180 | 2212 | 3000 | (AGly)aadA5 | 0/0 | 100 | 100.0 | AF137361:64-852 | (AGly)aadA5 | NA |
| contig00390 | 134 | 949 | (AGly)aph3-Ia | 0/0 | 100 | 99.9 | HQ840942:23569-24384 | (AGly)aph3-Ia | NA |
| contig00057 | 24437 | 25240 | (AGly)strA | 0/0 | 100 | 99.9 | AB366441:22458-23261 | (AGly)strA | NA |
| contig00057 | 23601 | 24437 | (AGly)strB | 0/0 | 100 | 100.0 | FJ474091:264-1100 | (AGly)strB | NA |
| contig00056 | 18585 | 19745 | (Bla)ampH | 0/0 | 100 | 99.3 | CP003785:4208384-4209544 | (Bla)ampH | NA |
| contig00057 | 5876 | 6751 | (Bla)blaCTX-M-15 | 0/0 | 100 | 100.0 | JQ686199:261-1136 | (Bla)blaCTX-M-15 | NA |
| contig00322 | 579 | 1409 | (Bla)blaOXA-1 | 0/0 | 100 | 100.0 | JQ682867:1-831 | (Bla)blaOXA-1 | NA |
| contig00236 | 3986 | 4852 | (Bla)blaSHV-187 | 0/0 | 100 | 99.5 | LN515533:1-867 | (Bla)blaSHV-187 | NA |
| contig00057 | 9573 | 10433 | (Bla)blaTEM-135 | 0/0 | 100 | 99.9 | JQ060998:1-861 | (Bla)blaTEM-135 | NA |
| contig00146 | 10744 | 11163 | (Fcyn)FosA6 | 0/0 | 100 | 99.3 | KU254579:59422-59841 | (Fcyn)FosA6 | NA |
| contig00031 | 10059 | 11234 | (Flq)OqxA | 0/0 | 100 | 99.7 | EU370913:46652-47827 | (Flq)OqxA | NA |
| contig00031 | 6883 | 10035 | (Flq)OqxBgb | 0/0 | 100 | 98.8 | EU370913:47851-51003 | (Flq)OqxBgb | NA |
| contig00057 | 11911 | 12567 | (Flq)qnr-S1 | 0/0 | 100 | 100.0 | AB187515:9737-10393 | (Flq)qnr-S1 | NA |
| contig00374 | 68 | 973 | (MLS)mph(A) | 0/0 | 100 | 100.0 | DQ445270:1626-2531 | (MLS)mph(A) | NA |
| contig00363 | 89 | 730 | (Phe)catA2 | 0/0 | 100 | 96.1 | X53796:187-903 | (Phe)catA2 | NA |
| contig00180 | 3547 | 4386 | (Sul)sul1 | 0/0 | 100 | 100.0 | AF071413:6700-7539 | (Sul)sul1 | NA |
| contig00057 | 25301 | 26116 | (Sul)sul2 | 0/0 | 100 | 100.0 | EU360945:1617-2432 | (Sul)sul2 | NA |
| contig00180 | 1608 | 2081 | (Tmt)dfrA17 | 0/0 | 100 | 100.0 | AB126604:98-571 | (Tmt)dfrA17 | NA |
NCBI
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00312 | 1693 | 2553 | aac(3)-IIe | 0/0 | 100 | 99.8 | NG_047244.1 | aminoglycoside N-acetyltransferase AAC(3)-IIe | GENTAMICIN |
| contig00322 | 1540 | 2094 | aac(6’)-Ib-D181Y | 0/0 | 100 | 99.8 | NG_067946.1 | AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase | AMIKACIN, KANAMYCIN, TOBRAMYCIN |
| contig00180 | 2212 | 3000 | aadA5 | 0/0 | 100 | 100.0 | NG_047357.1 | ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA5 | STREPTOMYCIN |
| contig00057 | 24437 | 25264 | aph(3’’)-Ib | 0/0 | 100 | 100.0 | NG_056002.2 | aminoglycoside O-phosphotransferase APH(3’’)-Ib | STREPTOMYCIN |
| contig00390 | 134 | 949 | aph(3’)-Ia | 0/0 | 100 | 100.0 | NG_047430.1 | aminoglycoside O-phosphotransferase APH(3’)-Ia | KANAMYCIN |
| contig00057 | 23601 | 24437 | aph(6)-Id | 0/0 | 100 | 100.0 | NG_047464.1 | aminoglycoside O-phosphotransferase APH(6)-Id | STREPTOMYCIN |
| contig00057 | 5876 | 6751 | blaCTX-M-15 | 0/0 | 100 | 100.0 | NG_048935.1 | class A extended-spectrum beta-lactamase CTX-M-15 | CEPHALOSPORIN |
| contig00322 | 579 | 1409 | blaOXA-1 | 0/0 | 100 | 100.0 | NG_049392.1 | oxacillin-hydrolyzing class D beta-lactamase OXA-1 | CEPHALOSPORIN |
| contig00236 | 3986 | 4852 | blaSHV-187 | 0/0 | 100 | 99.5 | NG_050053.1 | class A beta-lactamase SHV-187 | BETA-LACTAM |
| contig00057 | 9573 | 10433 | blaTEM-235 | 0/0 | 100 | 99.9 | NG_059898.1 | class A beta-lactamase TEM-235 | BETA-LACTAM |
| contig00363 | 89 | 730 | catA2 | 0/0 | 100 | 100.0 | NG_047596.1 | type A-2 chloramphenicol O-acetyltransferase CatII | CHLORAMPHENICOL |
| contig00180 | 1608 | 2081 | dfrA17 | 0/0 | 100 | 99.8 | NG_047710.1 | trimethoprim-resistant dihydrofolate reductase DfrA17 | TRIMETHOPRIM |
| contig00146 | 10744 | 11163 | fosA6 | 0/0 | 100 | 99.3 | NG_051497.1 | fosfomycin resistance glutathione transferase FosA6 | FOSFOMYCIN |
| contig00374 | 68 | 989 | mph(A) | 1/1 | 100 | 99.7 | NG_047986.1 | Mph(A) family macrolide 2’-phosphotransferase | MACROLIDE |
| contig00031 | 10059 | 11234 | oqxA8 | 0/0 | 100 | 99.8 | NG_050426.1 | multidrug efflux RND transporter periplasmic adaptor subunit OqxA8 | PHENICOL, QUINOLONE |
| contig00031 | 6883 | 10035 | oqxB11 | 0/0 | 100 | 99.3 | NG_050429.1 | multidrug efflux RND transporter permease subunit OqxB11 | PHENICOL, QUINOLONE |
| contig00057 | 11911 | 12567 | qnrS1 | 0/0 | 100 | 100.0 | NG_050543.1 | quinolone resistance pentapeptide repeat protein QnrS1 | QUINOLONE |
| contig00180 | 3547 | 4386 | sul1 | 0/0 | 100 | 100.0 | NG_048082.1 | sulfonamide-resistant dihydropteroate synthase Sul1 | SULFONAMIDE |
| contig00057 | 25301 | 26116 | sul2 | 0/0 | 100 | 100.0 | NG_051852.1 | sulfonamide-resistant dihydropteroate synthase Sul2 | SULFONAMIDE |
MEGARES
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00312 | 1693 | 2553 | AAC3 | 0/0 | 100.0 | 99.8 | MEG_44 | Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 | NA |
| contig00004 | 8100 | 9293 | ACRA | 2/3 | 99.8 | 97.8 | MEG_400 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA | NA |
| contig00056 | 18585 | 19745 | AMPH | 0/0 | 100.0 | 99.3 | MEG_730 | Drugs:betalactams:Penicillin_binding_protein:AMPH | NA |
| contig00180 | 2212 | 3000 | ANT3-DPRIME | 0/0 | 100.0 | 100.0 | MEG_928 | Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME | NA |
| contig00057 | 24437 | 25264 | APH3-DPRIME | 0/0 | 100.0 | 100.0 | MEG_1019 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME | NA |
| contig00390 | 134 | 949 | APH3-PRIME | 0/0 | 100.0 | 100.0 | MEG_1079 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-PRIME | NA |
| contig00057 | 23601 | 24437 | APH6 | 0/0 | 100.0 | 100.0 | MEG_1086 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 | NA |
| contig00025 | 1757 | 3580 | ASMA | 0/0 | 100.0 | 99.7 | MEG_1179 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA | NA |
| contig00363 | 89 | 730 | CATA | 0/0 | 100.0 | 100.0 | MEG_1568 | Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA | NA |
| contig00002 | 22564 | 23262 | CPXAR | 0/0 | 100.0 | 99.9 | MEG_2116 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00002 | 23259 | 24632 | CPXAR | 0/0 | 100.0 | 99.8 | MEG_2115 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00180 | 1608 | 2081 | DFRA | 0/0 | 100.0 | 100.0 | MEG_2547 | Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA | NA |
| contig00146 | 10744 | 11163 | FOSA | 0/0 | 100.0 | 99.3 | MEG_2987 | Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA | NA |
| contig00010 | 18954 | 20186 | KDEA | 0/0 | 100.0 | 99.5 | MEG_3447 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KDEA | NA |
| contig00181 | 4002 | 5174 | KPN | 0/0 | 100.0 | 99.1 | MEG_3512 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KPN | NA |
| contig00097 | 14925 | 15287 | KPNE | 0/0 | 100.0 | 98.9 | MEG_3514 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNE | NA |
| contig00097 | 14609 | 14938 | KPNF | 0/0 | 100.0 | 98.8 | MEG_3515 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNF | NA |
| contig00077 | 19662 | 20759 | KPNO | 0/0 | 100.0 | 100.0 | MEG_3516 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNO | NA |
| contig00374 | 68 | 989 | MPHA | 1/1 | 100.0 | 99.7 | MEG_4030 | Drugs:MLS:Macrolide_phosphotransferases:MPHA | NA |
| contig00125 | 4465 | 5589 | OMP37 | 0/0 | 100.0 | 99.2 | MEG_4283 | Drugs:betalactams:Mutant_porin_proteins:OMP37 | NA |
| contig00031 | 10059 | 11234 | OQXA | 0/0 | 100.0 | 99.8 | MEG_4327 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXA | NA |
| contig00031 | 6883 | 10035 | OQXB | 0/0 | 100.0 | 99.3 | MEG_4364 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXB | NA |
| contig00322 | 579 | 1409 | OXA | 0/0 | 100.0 | 100.0 | MEG_4980 | Drugs:betalactams:Class_D_betalactamases:OXA | NA |
| contig00018 | 1416 | 2882 | PHOR | 0/0 | 100.0 | 99.9 | MEG_5786 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_regulator:PHOR | NA |
| contig00057 | 11911 | 12567 | QNRS | 0/0 | 100.0 | 100.0 | MEG_6020 | Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS | NA |
| contig00236 | 3946 | 4949 | SHV | 0/0 | 99.7 | 98.9 | MEG_6428 | Drugs:betalactams:Class_A_betalactamases:SHV | NA |
| contig00180 | 3546 | 4513 | SULI | 0/0 | 100.0 | 100.0 | MEG_6615 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI | NA |
| contig00057 | 25301 | 26116 | SULII | 0/0 | 100.0 | 100.0 | MEG_6617 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII | NA |
| contig00057 | 9206 | 10451 | TEM | 0/0 | 98.3 | 99.6 | MEG_6875 | Drugs:betalactams:Class_A_betalactamases:TEM | NA |
ID030III
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00095 | 843 | 1646 | aph(3’’)-Ib_5 | 0/0 | 100.0 | 100.0 | AF321551 | aph(3’’)-Ib | Streptomycin |
| contig00095 | 7 | 843 | aph(6)-Id_1 | 0/0 | 100.0 | 100.0 | M28829 | aph(6)-Id | Streptomycin |
| contig00083 | 6054 | 6929 | blaCTX-M-55_1 | 0/0 | 100.0 | 100.0 | DQ810789 | blaCTX-M-55 | Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin |
| contig00112 | 530 | 1390 | blaTEM-1B_1 | 0/0 | 100.0 | 100.0 | AY458016 | blaTEM-1B | Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin |
| contig00013 | 92244 | 92903 | catA1_1 | 0/0 | 100.0 | 99.8 | V00622 | catA1 | Chloramphenicol |
| contig00130 | 91 | 732 | catA2_1 | 0/0 | 100.0 | 96.1 | X53796 | catA2 | Chloramphenicol |
| contig00013 | 98927 | 99500 | dfrA7_5 | 3/4 | 100.0 | 98.8 | AJ419170 | dfrA7 | Trimethoprim |
| contig00020 | 26708 | 27940 | mdf(A)_1 | 0/0 | 100.0 | 99.3 | Y08743 | mdf(A) | |
| contig00083 | 757 | 1413 | qnrS1_1 | 0/0 | 100.0 | 100.0 | AB187515 | qnrS1 | Ciprofloxacin |
| contig00013 | 99944 | 100730 | sul1_5 | 0/0 | 90.8 | 99.9 | EU780013 | sul1 | Sulfamethoxazole |
| contig00095 | 1707 | 2522 | sul2_3 | 0/0 | 100.0 | 100.0 | HQ840942 | sul2 | Sulfamethoxazole |
| contig00100 | 729 | 1975 | tet(A)_6 | 0/0 | 97.8 | 100.0 | AF534183 | tet(A) | Doxycycline, Tetracycline |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00050 | 3025 | 6174 | acrB | 0/0 | 100.0 | 99.4 | U00096.3:484403-481253 | Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00037 | 11080 | 14193 | acrD | 0/0 | 100.0 | 99.3 | AP009048.1:2586250-2589364 | AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. | aminoglycoside |
| contig00009 | 116839 | 117995 | acrE | 0/0 | 99.9 | 99.0 | U00096:3413863-3415021 | AcrE is a membrane fusion protein similar to AcrA. | cephalosporin, cephamycin, fluoroquinolone, penam |
| contig00009 | 118008 | 121112 | acrF | 0/0 | 100.0 | 99.0 | U00096:3415032-3418137 | AcrF is a inner membrane transporter similar to AcrB. | cephalosporin, cephamycin, fluoroquinolone, penam |
| contig00009 | 115778 | 116440 | acrS | 0/0 | 100.0 | 99.1 | U00096:3413465-3412802 | AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. | cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00095 | 843 | 1646 | APH(3’’)-Ib | 0/0 | 100.0 | 99.8 | AF313472:15593-16397 | APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. | aminoglycoside |
| contig00095 | 7 | 843 | APH(6)-Id | 0/0 | 100.0 | 99.9 | AF024602:3155-3992 | APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum | aminoglycoside |
| contig00005 | 65864 | 66685 | bacA | 0/0 | 100.0 | 99.6 | U00096.3:3204131-3203309 | The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. | peptide |
| contig00003 | 129600 | 130322 | baeR | 0/0 | 100.0 | 100.0 | AP009048.1:2166412-2167135 | BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. | aminocoumarin, aminoglycoside |
| contig00003 | 130319 | 131722 | baeS | 0/0 | 100.0 | 100.0 | AP009048:2165012-2166416 | BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. | aminocoumarin, aminoglycoside |
| contig00013 | 92244 | 92903 | catI | 0/0 | 100.0 | 99.8 | V00622:243-903 | catI is a chromosome and transposon-encoded variant of the cat gene found in Escherichia coli and Acinetobacter baumannii | phenicol |
| contig00130 | 91 | 732 | catII_from_Escherichia_coli_K-12 | 0/0 | 100.0 | 96.1 | X53796.1:186-828 | catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. | phenicol |
| contig00022 | 61915 | 63288 | cpxA | 0/0 | 100.0 | 98.8 | BA000007.3:4905062-4903688 | CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. | aminocoumarin, aminoglycoside |
| contig00011 | 15273 | 15905 | CRP | 0/0 | 100.0 | 99.4 | AP009048.1:4154296-4153663 | CRP is a global regulator that represses MdtEF multidrug efflux pump expression. | fluoroquinolone, macrolide, penam |
| contig00083 | 6054 | 6929 | CTX-M-55 | 0/0 | 100.0 | 100.0 | DQ885477:0-876 | CTX-M-55 is a beta-lactamase found in the Enterobacteriaceae family | cephalosporin |
| contig00013 | 98927 | 99400 | dfrA7 | 0/0 | 100.0 | 100.0 | FJ854362:2338-2812 | dfrA7 is an integron-encoded dihydrofolate reductase found in Escherichia coli | diaminopyrimidine |
| contig00068 | 8239 | 9411 | emrA | 0/0 | 100.0 | 99.6 | AP009048:2810082-2811255 | EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. | fluoroquinolone |
| contig00068 | 9428 | 10966 | emrB | 0/0 | 100.0 | 100.0 | U00096:2812615-2814154 | emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. | fluoroquinolone |
| contig00015 | 65145 | 66200 | emrK | 0/0 | 100.0 | 99.9 | D78168:536-1592 | emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. | tetracycline |
| contig00068 | 7582 | 8112 | emrR | 0/0 | 100.0 | 100.0 | U00096.3:2810769-2811300 | EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. | fluoroquinolone |
| contig00015 | 63607 | 65145 | emrY | 0/0 | 100.0 | 99.0 | D78168:1591-3130 | emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. | tetracycline |
| contig00019 | 17535 | 19178 | eptA | 0/0 | 100.0 | 99.8 | AP009048:4340268-4338624 | PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. | peptide |
| contig00050 | 6197 | 7390 | Escherichia_coli_acrA | 0/0 | 100.0 | 99.9 | U00096.3:485619-484425 | AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00002 | 45251 | 46384 | Escherichia_coli_ampC | 0/0 | 100.0 | 97.3 | U00096.3:4378944-4377810 | A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. | cephalosporin, penam |
| contig00040 | 28343 | 29647 | Escherichia_coli_ampC1_beta-lactamase | 0/0 | 100.0 | 99.2 | FN649414.1:2765050-2766355 | An ampC-like beta-lactamase identified from Escherichia coli. | cephalosporin, penam |
| contig00018 | 3404 | 4561 | Escherichia_coli_ampH | 0/0 | 100.0 | 98.9 | AP012030.1:396711-395553 | AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. | cephalosporin, penam |
| contig00070 | 2032 | 2364 | Escherichia_coli_emrE | 0/0 | 100.0 | 91.9 | Z11877.1:485-818 | Member of the small MDR (multidrug resistance) family of transporters, in Escherichia coli this protein provides resistance against a number of positively charged compounds including ethidium bromide and erythromycin, proton-dependent secondary transporter which exchanges protons for compound translocation | macrolide |
| contig00020 | 26708 | 27940 | Escherichia_coli_mdfA | 0/0 | 100.0 | 97.8 | JQ394987:0-1233 | Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. | benzalkonium_chloride, rhodamine, tetracycline |
| contig00015 | 66724 | 67338 | evgA | 0/0 | 100.0 | 100.0 | BA000007.3:3212025-3212640 | EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. | fluoroquinolone, macrolide, penam, tetracycline |
| contig00015 | 67343 | 70936 | evgS | 0/0 | 100.0 | 99.9 | U00096:2484373-2487967 | EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. | fluoroquinolone, macrolide, penam, tetracycline |
| contig00023 | 31846 | 32574 | gadW | 0/0 | 100.0 | 94.7 | CP015085.1:2552440-2551711 | GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. | fluoroquinolone, macrolide, penam |
| contig00023 | 30654 | 31478 | gadX | 0/0 | 100.0 | 99.9 | AP009048.1:3974604-3975429 | GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. | fluoroquinolone, macrolide, penam |
| contig00024 | 38183 | 38596 | H-NS | 0/0 | 100.0 | 99.0 | BA000007.3:1738104-1737690 | H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. | cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline |
| contig00062 | 8065 | 8742 | kdpE | 0/0 | 100.0 | 99.1 | U00096.3:721733-721055 | kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. | aminoglycoside |
| contig00046 | 3021 | 3404 | marA | 0/0 | 100.0 | 100.0 | AP009048.1:1621287-1621671 | In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. | carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan |
| contig00003 | 139335 | 140582 | mdtA | 0/0 | 100.0 | 100.0 | U00096:2154015-2155263 | MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. | aminocoumarin |
| contig00003 | 136213 | 139335 | mdtB | 0/0 | 100.0 | 99.8 | U00096:2155262-2158385 | MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. | aminocoumarin |
| contig00003 | 133135 | 136212 | mdtC | 0/0 | 100.0 | 99.9 | U00096:2158385-2161463 | MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. | aminocoumarin |
| contig00023 | 36075 | 37232 | mdtE | 0/0 | 100.0 | 100.0 | AP009048.1:3981183-3980025 | MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. | fluoroquinolone, macrolide, penam |
| contig00023 | 32937 | 36050 | mdtF | 0/0 | 100.0 | 100.0 | U00096:3660413-3663527 | MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. | fluoroquinolone, macrolide, penam |
| contig00007 | 121966 | 123192 | mdtG | 0/0 | 100.0 | 99.5 | CP000800.1:1192954-1191727 | The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. | fosfomycin |
| contig00007 | 112127 | 113335 | mdtH | 0/0 | 100.0 | 98.3 | U00096:1125326-1124117 | Multidrug resistance protein MdtH | fluoroquinolone |
| contig00055 | 5685 | 6917 | mdtM | 0/0 | 100.0 | 96.3 | U00096.3:4568519-4567286 | Multidrug resistance protein MdtM | acridine_dye, fluoroquinolone, lincosamide, nucleoside, phenicol |
| contig00019 | 48710 | 49741 | mdtN | 0/0 | 100.0 | 99.9 | AP009048.1:4307588-4306556 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. | acridine_dye, nucleoside |
| contig00019 | 49741 | 51792 | mdtO | 0/0 | 100.0 | 99.1 | AP009048.1:4306557-4304505 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride | acridine_dye, nucleoside |
| contig00019 | 51789 | 53255 | mdtP | 0/0 | 100.0 | 100.0 | AP009048.1:4304509-4303042 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride | acridine_dye, nucleoside |
| contig00006 | 9600 | 10076 | mphB | 0/0 | 100.0 | 98.3 | AE005174.2:3397370-3397847 | The mphB gene encodes for MPH(2’)-II. This enzymes phosphorylates 14-membered and 16-membered macrolides. It phosphorylates macrolides in GTP- dependent manner at 2’-OH hydroxyl of desosamine sugar of macrolides. | macrolide |
| contig00004 | 87355 | 89103 | msbA | 0/0 | 100.0 | 100.0 | U00096.3:966620-968369 | MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. | nitroimidazole |
| contig00012 | 61747 | 62715 | pmrF | 0/0 | 100.0 | 99.6 | U00096:2367070-2368039 | PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. | peptide |
| contig00083 | 757 | 1413 | QnrS1 | 0/0 | 100.0 | 100.0 | DQ485529.1:0-657 | QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri | fluoroquinolone |
| contig00013 | 99971 | 100730 | sul1 | 0/0 | 90.5 | 100.0 | JF969163:1053-1893 | Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. | sulfonamide |
| contig00095 | 1707 | 2522 | sul2 | 0/0 | 100.0 | 99.6 | AY055428.1:21084-20268 | Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. | sulfonamide |
| contig00112 | 530 | 1390 | TEM-1 | 0/0 | 100.0 | 99.9 | AL513383:161910-162771 | TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. | cephalosporin, monobactam, penam, penem |
| contig00100 | 729 | 1975 | tet(A) | 0/0 | 97.8 | 100.0 | AF534183.1:2970-4245 | TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. | tetracycline |
| contig00005 | 42002 | 43489 | tolC | 0/0 | 100.0 | 99.8 | FJ768952:0-1488 | TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. | aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan |
| contig00012 | 1996 | 3639 | yojI | 0/0 | 100.0 | 99.8 | U00096.3:2308615-2306971 | YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. | peptide |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00095 | 843 | 1646 | (AGly)strA | 0/0 | 100.0 | 99.9 | AB366441:22458-23261 | (AGly)strA | NA |
| contig00095 | 7 | 843 | (AGly)strB | 0/0 | 100.0 | 100.0 | FJ474091:264-1100 | (AGly)strB | NA |
| contig00040 | 28343 | 29647 | (Bla)AmpC1_Ecoli | 0/0 | 100.0 | 99.2 | FN649414:2765051-2766355 | (Bla)AmpC1_Ecoli | NA |
| contig00002 | 45251 | 46384 | (Bla)AmpC2_Ecoli | 0/0 | 100.0 | 97.3 | CP002970:332756-333889 | (Bla)AmpC2_Ecoli | NA |
| contig00018 | 3404 | 4561 | (Bla)ampH_Ecoli | 0/0 | 100.0 | 98.9 | AP012030:395554-396711 | (Bla)ampH_Ecoli | NA |
| contig00083 | 6054 | 6929 | (Bla)blaCTX-M-55 | 0/0 | 100.0 | 100.0 | HM748991:321-1196 | (Bla)blaCTX-M-55 | NA |
| contig00112 | 530 | 1390 | (Bla)blaTEM-105 | 0/0 | 100.0 | 99.9 | AF516720:215-1075 | (Bla)blaTEM-105 | NA |
| contig00017 | 31036 | 32937 | (Bla)Penicillin_Binding_Protein_Ecoli | 0/0 | 100.0 | 99.4 | CP002291:664439-666340 | (Bla)Penicillin_Binding_Protein_Ecoli | NA |
| contig00083 | 757 | 1413 | (Flq)qnr-S1 | 0/0 | 100.0 | 100.0 | AB187515:9737-10393 | (Flq)qnr-S1 | NA |
| contig00013 | 92244 | 92903 | (Phe)catA1 | 0/0 | 100.0 | 99.8 | V00622:244-903 | (Phe)catA1 | NA |
| contig00130 | 91 | 732 | (Phe)catA2 | 0/0 | 100.0 | 96.1 | X53796:187-903 | (Phe)catA2 | NA |
| contig00013 | 99971 | 100730 | (Sul)sul1 | 0/0 | 90.5 | 100.0 | AF071413:6700-7539 | (Sul)sul1 | NA |
| contig00095 | 1707 | 2522 | (Sul)sul2 | 0/0 | 100.0 | 99.6 | EU360945:1617-2432 | (Sul)sul2 | NA |
| contig00100 | 729 | 2003 | (Tet)tetA | 0/0 | 100.0 | 100.0 | JX424423:94438-95712 | (Tet)tetA | NA |
| contig00100 | 48 | 698 | (Tet)tetR | 0/0 | 100.0 | 100.0 | HF545434:53576-54226 | (Tet)tetR | NA |
| contig00013 | 98927 | 99400 | (Tmt)dhfr7 | 0/0 | 100.0 | 100.0 | X58425:594-1067 | (Tmt)dhfr7 | NA |
NCBI
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00095 | 843 | 1670 | aph(3’’)-Ib | 0/0 | 100.0 | 100.0 | NG_056002.2 | aminoglycoside O-phosphotransferase APH(3’’)-Ib | STREPTOMYCIN |
| contig00095 | 7 | 843 | aph(6)-Id | 0/0 | 100.0 | 100.0 | NG_047464.1 | aminoglycoside O-phosphotransferase APH(6)-Id | STREPTOMYCIN |
| contig00083 | 6054 | 6929 | blaCTX-M-55 | 0/0 | 100.0 | 100.0 | NG_049006.1 | class A extended-spectrum beta-lactamase CTX-M-55 | CEPHALOSPORIN |
| contig00002 | 45251 | 46384 | blaEC-15 | 0/0 | 100.0 | 98.6 | NG_049081.1 | class C extended-spectrum beta-lactamase EC-15 | CEPHALOSPORIN |
| contig00112 | 530 | 1390 | blaTEM-1 | 0/0 | 100.0 | 100.0 | NG_050145.1 | class A broad-spectrum beta-lactamase TEM-1 | BETA-LACTAM |
| contig00013 | 92244 | 92903 | catA1 | 0/0 | 100.0 | 99.8 | NG_047582.1 | type A-1 chloramphenicol O-acetyltransferase | CHLORAMPHENICOL |
| contig00130 | 91 | 732 | catA2 | 0/0 | 100.0 | 100.0 | NG_047596.1 | type A-2 chloramphenicol O-acetyltransferase CatII | CHLORAMPHENICOL |
| contig00013 | 98927 | 99400 | dfrA7 | 0/0 | 100.0 | 100.0 | NG_047737.1 | trimethoprim-resistant dihydrofolate reductase DfrA7 | TRIMETHOPRIM |
| contig00083 | 757 | 1413 | qnrS1 | 0/0 | 100.0 | 100.0 | NG_050543.1 | quinolone resistance pentapeptide repeat protein QnrS1 | QUINOLONE |
| contig00013 | 99971 | 100730 | sul1 | 0/0 | 91.8 | 100.0 | NG_048089.1 | sulfonamide-resistant dihydropteroate synthase Sul1 | SULFONAMIDE |
| contig00095 | 1707 | 2522 | sul2 | 0/0 | 100.0 | 99.9 | NG_048118.1 | sulfonamide-resistant dihydropteroate synthase Sul2 | SULFONAMIDE |
| contig00100 | 804 | 2003 | tet(A) | 0/0 | 100.0 | 100.0 | NG_048154.1 | tetracycline efflux MFS transporter Tet(A) | TETRACYCLINE |
MEGARES
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00050 | 6197 | 7390 | ACRA | 0/0 | 100.0 | 99.9 | MEG_399 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA | NA |
| contig00050 | 3025 | 6174 | ACRB | 0/0 | 100.0 | 99.4 | MEG_401 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB | NA |
| contig00037 | 11080 | 14193 | ACRD | 0/0 | 100.0 | 99.3 | MEG_407 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD | NA |
| contig00009 | 116839 | 117995 | ACRE | 0/0 | 99.9 | 99.0 | MEG_408 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE | NA |
| contig00009 | 118008 | 121112 | ACRF | 0/0 | 100.0 | 99.0 | MEG_409 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF | NA |
| contig00009 | 115778 | 116440 | ACRS | 0/0 | 100.0 | 99.1 | MEG_415 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS | NA |
| contig00018 | 3404 | 4561 | AMPH | 0/0 | 100.0 | 98.9 | MEG_729 | Drugs:betalactams:Penicillin_binding_protein:AMPH | NA |
| contig00095 | 843 | 1670 | APH3-DPRIME | 0/0 | 100.0 | 100.0 | MEG_1019 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME | NA |
| contig00095 | 7 | 843 | APH6 | 0/0 | 100.0 | 100.0 | MEG_1086 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 | NA |
| contig00003 | 152985 | 154837 | ASMA | 0/0 | 100.0 | 97.2 | MEG_1180 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA | NA |
| contig00005 | 65864 | 66685 | BACA | 0/0 | 100.0 | 99.6 | MEG_1189 | Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA | NA |
| contig00003 | 129600 | 130322 | BAER | 0/0 | 100.0 | 100.0 | MEG_1192 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER | NA |
| contig00003 | 130319 | 131722 | BAES | 0/0 | 100.0 | 100.0 | MEG_1193 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES | NA |
| contig00003 | 16903 | 18093 | BCR | 0/0 | 100.0 | 100.0 | MEG_1210 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR | NA |
| contig00002 | 45251 | 46384 | BLAEC | 0/0 | 100.0 | 98.6 | MEG_1282 | Drugs:betalactams:Class_C_betalactamases:BLAEC | NA |
| contig00013 | 92233 | 92903 | CATA | 0/0 | 100.0 | 100.0 | MEG_1593 | Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA | NA |
| contig00130 | 91 | 732 | CATA | 0/0 | 100.0 | 100.0 | MEG_1568 | Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA | NA |
| contig00022 | 61220 | 61918 | CPXAR | 0/0 | 100.0 | 99.9 | MEG_2118 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00022 | 61915 | 63288 | CPXAR | 0/0 | 100.0 | 99.5 | MEG_2121 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00011 | 15273 | 15905 | CRP | 0/0 | 100.0 | 99.4 | MEG_2132 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP | NA |
| contig00040 | 37472 | 38412 | CTX | 0/0 | 99.8 | 91.8 | MEG_2435 | Drugs:betalactams:Class_A_betalactamases:CTX | NA |
| contig00106 | 428 | 1316 | CTX | 0/0 | 100.0 | 95.4 | MEG_2430 | Drugs:betalactams:Class_A_betalactamases:CTX | NA |
| contig00125 | 96 | 939 | CTX | 0/0 | 94.9 | 99.6 | MEG_2430 | Drugs:betalactams:Class_A_betalactamases:CTX | NA |
| contig00013 | 98927 | 99400 | DFRA | 0/0 | 100.0 | 100.0 | MEG_2548 | Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA | NA |
| contig00068 | 8239 | 9411 | EMRA | 0/0 | 100.0 | 99.6 | MEG_2722 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA | NA |
| contig00068 | 9428 | 10966 | EMRB | 0/0 | 100.0 | 100.0 | MEG_2725 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB | NA |
| contig00038 | 37633 | 38823 | EMRD | 0/0 | 100.0 | 99.8 | MEG_2729 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD | NA |
| contig00015 | 65145 | 66308 | EMRK | 0/0 | 100.0 | 99.9 | MEG_2732 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK | NA |
| contig00068 | 7582 | 8112 | EMRR | 0/0 | 100.0 | 100.0 | MEG_2734 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR | NA |
| contig00015 | 63607 | 65145 | EMRY | 0/0 | 100.0 | 99.1 | MEG_2736 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY | NA |
| contig00019 | 17535 | 19178 | EPTA | 0/0 | 100.0 | 99.8 | MEG_2739 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA | NA |
| contig00015 | 67343 | 70936 | EVGS | 0/0 | 100.0 | 99.9 | MEG_2870 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS | NA |
| contig00023 | 31846 | 32574 | GADW | 0/0 | 100.0 | 100.0 | MEG_3081 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW | NA |
| contig00023 | 30654 | 31478 | GADX | 0/0 | 100.0 | 99.9 | MEG_3083 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX | NA |
| contig00024 | 38183 | 38596 | HNS | 0/0 | 100.0 | 99.0 | MEG_3271 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS | NA |
| contig00062 | 8065 | 8742 | KDPE | 0/0 | 100.0 | 99.1 | MEG_3448 | Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE | NA |
| contig00046 | 3015 | 3404 | MARA | 0/0 | 100.0 | 100.0 | MEG_3662 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA | NA |
| contig00046 | 2567 | 3001 | MARR | 0/0 | 100.0 | 97.5 | MEG_3663 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR | NA |
| contig00020 | 26708 | 27940 | MDFA | 0/0 | 100.0 | 99.4 | MEG_3737 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA | NA |
| contig00003 | 139335 | 140582 | MDTA | 0/0 | 100.0 | 100.0 | MEG_3746 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA | NA |
| contig00003 | 136213 | 139335 | MDTB | 0/0 | 100.0 | 99.8 | MEG_3747 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB | NA |
| contig00003 | 133135 | 136212 | MDTC | 0/0 | 100.0 | 99.9 | MEG_3749 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC | NA |
| contig00023 | 36075 | 37232 | MDTE | 0/0 | 100.0 | 100.0 | MEG_3751 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE | NA |
| contig00023 | 32937 | 36050 | MDTF | 0/0 | 100.0 | 100.0 | MEG_3752 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF | NA |
| contig00007 | 121966 | 123192 | MDTG | 0/0 | 100.0 | 99.5 | MEG_3754 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTG | NA |
| contig00007 | 112127 | 113335 | MDTH | 0/0 | 100.0 | 98.3 | MEG_3755 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH | NA |
| contig00001 | 45101 | 45430 | MDTI | 0/0 | 100.0 | 100.0 | MEG_3756 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI | NA |
| contig00001 | 45417 | 45782 | MDTJ | 0/0 | 100.0 | 99.5 | MEG_3757 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ | NA |
| contig00001 | 115630 | 117003 | MDTK | 0/0 | 100.0 | 98.9 | MEG_3759 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK | NA |
| contig00055 | 5685 | 6917 | MDTM | 0/0 | 100.0 | 96.3 | MEG_3761 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTM | NA |
| contig00019 | 48710 | 49741 | MDTN | 0/0 | 100.0 | 99.9 | MEG_3763 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN | NA |
| contig00019 | 49741 | 51792 | MDTO | 0/0 | 100.0 | 99.1 | MEG_3764 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO | NA |
| contig00019 | 51789 | 53255 | MDTP | 0/0 | 100.0 | 100.0 | MEG_3765 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP | NA |
| contig00006 | 9600 | 10076 | MPHB | 0/0 | 100.0 | 98.3 | MEG_4033 | Drugs:MLS:Macrolide_phosphotransferases:MPHB | NA |
| contig00004 | 87355 | 89103 | MSBA | 0/0 | 100.0 | 100.0 | MEG_4061 | Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA | NA |
| contig00070 | 2032 | 2364 | MVRC | 0/0 | 100.0 | 91.9 | MEG_4103 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MVRC | NA |
| contig00017 | 31036 | 32937 | PBP2 | 0/0 | 100.0 | 99.4 | MEG_5400 | Drugs:betalactams:Penicillin_binding_protein:PBP2 | NA |
| contig00040 | 28343 | 29647 | PBP4B | 0/0 | 100.0 | 99.2 | MEG_5409 | Drugs:betalactams:Penicillin_binding_protein:PBP4B | NA |
| contig00012 | 61747 | 62715 | PMRF | 0/0 | 100.0 | 99.6 | MEG_5801 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF | NA |
| contig00083 | 757 | 1413 | QNRS | 0/0 | 100.0 | 100.0 | MEG_6020 | Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS | NA |
| contig00027 | 21725 | 22594 | ROBA | 0/0 | 100.0 | 99.0 | MEG_6082 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA | NA |
| contig00019 | 75097 | 75419 | SOXS | 0/0 | 99.7 | 99.7 | MEG_6551 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS | NA |
| contig00013 | 99884 | 100730 | SULI | 0/0 | 91.4 | 100.0 | MEG_6616 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI | NA |
| contig00095 | 1707 | 2522 | SULII | 0/0 | 100.0 | 100.0 | MEG_6618 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII | NA |
| contig00112 | 512 | 1757 | TEM | 0/0 | 98.3 | 99.4 | MEG_6875 | Drugs:betalactams:Class_A_betalactamases:TEM | NA |
| contig00100 | 729 | 2003 | TETA | 0/0 | 100.0 | 100.0 | MEG_7024 | Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA | NA |
| contig00012 | 1996 | 3639 | YOGI | 0/0 | 100.0 | 99.8 | MEG_7842 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_ABC_efflux_pumps:YOGI | NA |
ID030II
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00035 | 2231 | 3034 | aph(3’’)-Ib_5 | 0/0 | 100 | 100.0 | AF321551 | aph(3’’)-Ib | Streptomycin |
| contig00035 | 3034 | 3870 | aph(6)-Id_1 | 0/0 | 100 | 99.9 | M28829 | aph(6)-Id | Streptomycin |
| contig00043 | 43104 | 43979 | blaCTX-M-15_1 | 0/0 | 100 | 100.0 | AY044436 | blaCTX-M-15 | Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin |
| contig00014 | 109 | 969 | blaTEM-1B_1 | 0/0 | 100 | 100.0 | AY458016 | blaTEM-1B | Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin |
| contig00068 | 7624 | 8097 | dfrA5_1 | 0/0 | 100 | 100.0 | X12868 | dfrA5 | Trimethoprim |
| contig00040 | 32646 | 33878 | mdf(A)_1 | 0/0 | 100 | 98.0 | Y08743 | mdf(A) | |
| contig00035 | 8407 | 9328 | mph(A)_2 | 1/1 | 100 | 99.6 | U36578 | mph(A) | Erythromycin, Azithromycin, Spiramycin, Telithromycin |
| contig00068 | 6260 | 7126 | sul1_5 | 0/0 | 100 | 99.9 | EU780013 | sul1 | Sulfamethoxazole |
| contig00035 | 1355 | 2170 | sul2_2 | 0/0 | 100 | 100.0 | AY034138 | sul2 | Sulfamethoxazole |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00029 | 33646 | 36795 | acrB | 0/0 | 100.0 | 99.0 | U00096.3:484403-481253 | Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00018 | 43114 | 46227 | acrD | 0/0 | 100.0 | 98.8 | AP009048.1:2586250-2589364 | AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. | aminoglycoside |
| contig00001 | 337724 | 338881 | acrE | 0/0 | 100.0 | 97.5 | U00096:3413863-3415021 | AcrE is a membrane fusion protein similar to AcrA. | cephalosporin, cephamycin, fluoroquinolone, penam |
| contig00001 | 338893 | 341997 | acrF | 0/0 | 100.0 | 97.8 | U00096:3415032-3418137 | AcrF is a inner membrane transporter similar to AcrB. | cephalosporin, cephamycin, fluoroquinolone, penam |
| contig00001 | 336663 | 337325 | acrS | 0/0 | 100.0 | 98.0 | U00096:3413465-3412802 | AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. | cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00035 | 2231 | 3034 | APH(3’’)-Ib | 0/0 | 100.0 | 99.8 | AF313472:15593-16397 | APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. | aminoglycoside |
| contig00035 | 3034 | 3870 | APH(6)-Id | 0/0 | 100.0 | 99.8 | AF024602:3155-3992 | APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum | aminoglycoside |
| contig00001 | 137439 | 138258 | bacA | 0/0 | 99.8 | 97.4 | U00096.3:3204131-3203309 | The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. | peptide |
| contig00010 | 20599 | 21321 | baeR | 0/0 | 100.0 | 100.0 | AP009048.1:2166412-2167135 | BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. | aminocoumarin, aminoglycoside |
| contig00010 | 19199 | 20602 | baeS | 0/0 | 100.0 | 100.0 | AP009048:2165012-2166416 | BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. | aminocoumarin, aminoglycoside |
| contig00015 | 63847 | 65220 | cpxA | 0/0 | 100.0 | 98.3 | BA000007.3:4905062-4903688 | CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. | aminocoumarin, aminoglycoside |
| contig00020 | 15003 | 15635 | CRP | 0/0 | 100.0 | 98.9 | AP009048.1:4154296-4153663 | CRP is a global regulator that represses MdtEF multidrug efflux pump expression. | fluoroquinolone, macrolide, penam |
| contig00043 | 43104 | 43979 | CTX-M-15 | 0/0 | 100.0 | 100.0 | AY044436:1435-2311 | CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family | cephalosporin |
| contig00068 | 7624 | 8097 | dfrA5 | 0/0 | 100.0 | 100.0 | DQ278190:0-474 | dfrA5 is an integron-encoded dihydrofolate reductase found in Vibrio cholerae | diaminopyrimidine |
| contig00004 | 23051 | 24223 | emrA | 0/0 | 100.0 | 97.4 | AP009048:2810082-2811255 | EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. | fluoroquinolone |
| contig00004 | 24240 | 25778 | emrB | 0/0 | 100.0 | 98.2 | U00096:2812615-2814154 | emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. | fluoroquinolone |
| contig00037 | 19693 | 20748 | emrK | 0/0 | 100.0 | 98.4 | D78168:536-1592 | emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. | tetracycline |
| contig00004 | 22394 | 22924 | emrR | 0/0 | 100.0 | 99.8 | U00096.3:2810769-2811300 | EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. | fluoroquinolone |
| contig00037 | 18155 | 19693 | emrY | 0/0 | 100.0 | 97.5 | D78168:1591-3130 | emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. | tetracycline |
| contig00005 | 116669 | 118312 | eptA | 0/0 | 100.0 | 99.2 | AP009048:4340268-4338624 | PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. | peptide |
| contig00029 | 36818 | 38011 | Escherichia_coli_acrA | 0/0 | 100.0 | 99.1 | U00096.3:485619-484425 | AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00009 | 130218 | 131351 | Escherichia_coli_ampC | 0/0 | 100.0 | 98.1 | U00096.3:4378944-4377810 | A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. | cephalosporin, penam |
| contig00006 | 54664 | 55821 | Escherichia_coli_ampH | 0/0 | 100.0 | 98.5 | AP012030.1:396711-395553 | AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. | cephalosporin, penam |
| contig00040 | 32646 | 33878 | Escherichia_coli_mdfA | 0/0 | 100.0 | 96.5 | JQ394987:0-1233 | Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. | benzalkonium_chloride, rhodamine, tetracycline |
| contig00037 | 21272 | 21886 | evgA | 0/0 | 100.0 | 99.5 | BA000007.3:3212025-3212640 | EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. | fluoroquinolone, macrolide, penam, tetracycline |
| contig00037 | 21891 | 25484 | evgS | 0/0 | 100.0 | 96.7 | U00096:2484373-2487967 | EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. | fluoroquinolone, macrolide, penam, tetracycline |
| contig00011 | 28386 | 29114 | gadW | 0/0 | 100.0 | 95.5 | CP015085.1:2552440-2551711 | GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. | fluoroquinolone, macrolide, penam |
| contig00011 | 27193 | 28017 | gadX | 0/0 | 100.0 | 94.3 | AP009048.1:3974604-3975429 | GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. | fluoroquinolone, macrolide, penam |
| contig00030 | 53590 | 54003 | H-NS | 0/0 | 100.0 | 99.5 | BA000007.3:1738104-1737690 | H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. | cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline |
| contig00057 | 7766 | 8441 | kdpE | 0/0 | 99.7 | 95.7 | U00096.3:721733-721055 | kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. | aminoglycoside |
| contig00013 | 51209 | 51592 | marA | 0/0 | 100.0 | 99.5 | AP009048.1:1621287-1621671 | In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. | carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan |
| contig00010 | 10339 | 11586 | mdtA | 0/0 | 100.0 | 100.0 | U00096:2154015-2155263 | MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. | aminocoumarin |
| contig00010 | 11586 | 14708 | mdtB | 0/0 | 100.0 | 99.8 | U00096:2155262-2158385 | MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. | aminocoumarin |
| contig00010 | 14709 | 17786 | mdtC | 0/0 | 100.0 | 99.8 | U00096:2158385-2161463 | MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. | aminocoumarin |
| contig00011 | 32615 | 33772 | mdtE | 0/0 | 100.0 | 98.5 | AP009048.1:3981183-3980025 | MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. | fluoroquinolone, macrolide, penam |
| contig00011 | 29477 | 32590 | mdtF | 0/0 | 100.0 | 98.5 | U00096:3660413-3663527 | MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. | fluoroquinolone, macrolide, penam |
| contig00055 | 19854 | 21081 | mdtG | 1/1 | 100.0 | 97.6 | CP000800.1:1192954-1191727 | The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. | fosfomycin |
| contig00055 | 29712 | 30920 | mdtH | 0/0 | 100.0 | 98.3 | U00096:1125326-1124117 | Multidrug resistance protein MdtH | fluoroquinolone |
| contig00063 | 259 | 1491 | mdtM | 0/0 | 100.0 | 96.3 | U00096.3:4568519-4567286 | Multidrug resistance protein MdtM | acridine_dye, fluoroquinolone, lincosamide, nucleoside, phenicol |
| contig00005 | 93049 | 94080 | mdtN | 0/0 | 100.0 | 96.9 | AP009048.1:4307588-4306556 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. | acridine_dye, nucleoside |
| contig00005 | 90998 | 93049 | mdtO | 0/0 | 100.0 | 96.4 | AP009048.1:4306557-4304505 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride | acridine_dye, nucleoside |
| contig00005 | 89535 | 91001 | mdtP | 0/0 | 100.0 | 97.6 | AP009048.1:4304509-4303042 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride | acridine_dye, nucleoside |
| contig00035 | 8423 | 9328 | mphA | 0/0 | 100.0 | 99.9 | D16251.1:2531-1625 | The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. | macrolide |
| contig00018 | 21933 | 22407 | mphB | 0/0 | 99.6 | 96.6 | AE005174.2:3397370-3397847 | The mphB gene encodes for MPH(2’)-II. This enzymes phosphorylates 14-membered and 16-membered macrolides. It phosphorylates macrolides in GTP- dependent manner at 2’-OH hydroxyl of desosamine sugar of macrolides. | macrolide |
| contig00054 | 3895 | 5643 | msbA | 0/0 | 100.0 | 98.7 | U00096.3:966620-968369 | MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. | nitroimidazole |
| contig00019 | 5885 | 6853 | pmrF | 0/0 | 100.0 | 98.7 | U00096:2367070-2368039 | PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. | peptide |
| contig00068 | 6260 | 7099 | sul1 | 0/0 | 100.0 | 100.0 | JF969163:1053-1893 | Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. | sulfonamide |
| contig00035 | 1355 | 2170 | sul2 | 0/0 | 100.0 | 100.0 | AY055428.1:21084-20268 | Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. | sulfonamide |
| contig00014 | 109 | 969 | TEM-1 | 0/0 | 100.0 | 99.9 | AL513383:161910-162771 | TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. | cephalosporin, monobactam, penam, penem |
| contig00001 | 113927 | 115414 | tolC | 0/0 | 100.0 | 98.3 | FJ768952:0-1488 | TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. | aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan |
| contig00023 | 30722 | 31888 | ugd | 0/0 | 100.0 | 99.9 | U00096:2099613-2098446 | PmrE is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin | peptide |
| contig00025 | 25564 | 27207 | yojI | 0/0 | 100.0 | 96.6 | U00096.3:2308615-2306971 | YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. | peptide |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00035 | 2231 | 3034 | (AGly)strA | 0/0 | 100 | 99.9 | AB366441:22458-23261 | (AGly)strA | NA |
| contig00035 | 3034 | 3870 | (AGly)strB | 0/0 | 100 | 99.9 | FJ474091:264-1100 | (AGly)strB | NA |
| contig00009 | 130218 | 131351 | (Bla)AmpC2_Ecoli | 0/0 | 100 | 98.1 | CP002970:332756-333889 | (Bla)AmpC2_Ecoli | NA |
| contig00006 | 54664 | 55821 | (Bla)ampH_Ecoli | 0/0 | 100 | 98.5 | AP012030:395554-396711 | (Bla)ampH_Ecoli | NA |
| contig00043 | 43104 | 43979 | (Bla)blaCTX-M-15 | 0/0 | 100 | 100.0 | JQ686199:261-1136 | (Bla)blaCTX-M-15 | NA |
| contig00014 | 109 | 969 | (Bla)blaTEM-105 | 0/0 | 100 | 99.9 | AF516720:215-1075 | (Bla)blaTEM-105 | NA |
| contig00012 | 19082 | 20983 | (Bla)Penicillin_Binding_Protein_Ecoli | 0/0 | 100 | 99.0 | CP002291:664439-666340 | (Bla)Penicillin_Binding_Protein_Ecoli | NA |
| contig00035 | 8423 | 9328 | (MLS)mph(A) | 0/0 | 100 | 99.9 | DQ445270:1626-2531 | (MLS)mph(A) | NA |
| contig00068 | 6260 | 7099 | (Sul)sul1 | 0/0 | 100 | 100.0 | AF071413:6700-7539 | (Sul)sul1 | NA |
| contig00035 | 1355 | 2170 | (Sul)sul2 | 0/0 | 100 | 100.0 | EU360945:1617-2432 | (Sul)sul2 | NA |
| contig00068 | 7624 | 8097 | (Tmt)dfrA5 | 0/0 | 100 | 100.0 | X12868:1306-1779 | (Tmt)dfrA5 | NA |
NCBI
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00035 | 2207 | 3034 | aph(3’’)-Ib | 0/0 | 100 | 100.0 | NG_056002.2 | aminoglycoside O-phosphotransferase APH(3’’)-Ib | STREPTOMYCIN |
| contig00035 | 3034 | 3870 | aph(6)-Id | 0/0 | 100 | 100.0 | NG_047466.1 | aminoglycoside O-phosphotransferase APH(6)-Id | STREPTOMYCIN |
| contig00043 | 43104 | 43979 | blaCTX-M-15 | 0/0 | 100 | 100.0 | NG_048935.1 | class A extended-spectrum beta-lactamase CTX-M-15 | CEPHALOSPORIN |
| contig00009 | 130218 | 131351 | blaEC-8 | 0/0 | 100 | 99.8 | NG_049086.1 | cephalosporin-hydrolyzing class C beta-lactamase EC-8 | CEPHALOSPORIN |
| contig00014 | 109 | 969 | blaTEM-1 | 0/0 | 100 | 100.0 | NG_050145.1 | class A broad-spectrum beta-lactamase TEM-1 | BETA-LACTAM |
| contig00068 | 7624 | 8097 | dfrA5 | 0/0 | 100 | 100.0 | NG_051699.1 | trimethoprim-resistant dihydrofolate reductase DfrA5 | TRIMETHOPRIM |
| contig00035 | 8407 | 9328 | mph(A) | 1/1 | 100 | 99.6 | NG_047986.1 | Mph(A) family macrolide 2’-phosphotransferase | MACROLIDE |
| contig00068 | 6260 | 7099 | sul1 | 0/0 | 100 | 100.0 | NG_048082.1 | sulfonamide-resistant dihydropteroate synthase Sul1 | SULFONAMIDE |
| contig00035 | 1355 | 2170 | sul2 | 0/0 | 100 | 100.0 | NG_051852.1 | sulfonamide-resistant dihydropteroate synthase Sul2 | SULFONAMIDE |
MEGARES
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00029 | 36818 | 38011 | ACRA | 0/0 | 100.0 | 99.1 | MEG_399 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA | NA |
| contig00029 | 33646 | 36795 | ACRB | 0/0 | 100.0 | 99.0 | MEG_401 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB | NA |
| contig00018 | 43114 | 46227 | ACRD | 0/0 | 100.0 | 98.8 | MEG_407 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD | NA |
| contig00001 | 337724 | 338881 | ACRE | 0/0 | 100.0 | 97.5 | MEG_408 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE | NA |
| contig00001 | 338893 | 341997 | ACRF | 0/0 | 100.0 | 97.8 | MEG_409 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF | NA |
| contig00001 | 336663 | 337325 | ACRS | 0/0 | 100.0 | 98.0 | MEG_415 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS | NA |
| contig00006 | 54664 | 55821 | AMPH | 0/0 | 100.0 | 98.5 | MEG_729 | Drugs:betalactams:Penicillin_binding_protein:AMPH | NA |
| contig00035 | 2207 | 3034 | APH3-DPRIME | 0/0 | 100.0 | 100.0 | MEG_1019 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME | NA |
| contig00035 | 3034 | 3870 | APH6 | 0/0 | 100.0 | 100.0 | MEG_1084 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 | NA |
| contig00023 | 71669 | 73522 | ASMA | 0/0 | 100.0 | 97.7 | MEG_1180 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA | NA |
| contig00001 | 137439 | 138258 | BACA | 0/0 | 99.8 | 97.9 | MEG_1189 | Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA | NA |
| contig00010 | 20599 | 21321 | BAER | 0/0 | 100.0 | 100.0 | MEG_1192 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER | NA |
| contig00010 | 19199 | 20602 | BAES | 0/0 | 100.0 | 100.0 | MEG_1193 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES | NA |
| contig00010 | 132693 | 133883 | BCR | 0/0 | 100.0 | 95.2 | MEG_1210 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR | NA |
| contig00009 | 130218 | 131351 | BLAEC | 0/0 | 100.0 | 99.8 | MEG_1278 | Drugs:betalactams:Class_C_betalactamases:BLAEC | NA |
| contig00015 | 63152 | 63850 | CPXAR | 0/0 | 100.0 | 99.6 | MEG_2118 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00015 | 63847 | 65220 | CPXAR | 0/0 | 100.0 | 98.5 | MEG_2121 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00020 | 15003 | 15635 | CRP | 0/0 | 100.0 | 98.9 | MEG_2132 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP | NA |
| contig00068 | 7624 | 8097 | DFRA | 0/0 | 100.0 | 100.0 | MEG_2546 | Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA | NA |
| contig00004 | 23051 | 24223 | EMRA | 0/0 | 100.0 | 97.4 | MEG_2722 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA | NA |
| contig00004 | 24240 | 25778 | EMRB | 0/0 | 100.0 | 98.2 | MEG_2725 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB | NA |
| contig00017 | 87286 | 88476 | EMRD | 0/0 | 100.0 | 97.3 | MEG_2729 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD | NA |
| contig00037 | 19693 | 20856 | EMRK | 0/0 | 100.0 | 98.5 | MEG_2732 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK | NA |
| contig00004 | 22394 | 22924 | EMRR | 0/0 | 100.0 | 99.8 | MEG_2734 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR | NA |
| contig00037 | 18155 | 19693 | EMRY | 0/0 | 100.0 | 97.5 | MEG_2736 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY | NA |
| contig00005 | 116669 | 118312 | EPTA | 0/0 | 100.0 | 99.2 | MEG_2739 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA | NA |
| contig00037 | 21891 | 25484 | EVGS | 0/0 | 100.0 | 97.3 | MEG_2869 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS | NA |
| contig00011 | 28386 | 29114 | GADW | 0/0 | 100.0 | 97.7 | MEG_3081 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW | NA |
| contig00011 | 27193 | 28017 | GADX | 0/0 | 100.0 | 94.3 | MEG_3083 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX | NA |
| contig00030 | 53590 | 54003 | HNS | 0/0 | 100.0 | 99.5 | MEG_3271 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS | NA |
| contig00057 | 7766 | 8441 | KDPE | 0/0 | 99.7 | 95.7 | MEG_3448 | Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE | NA |
| contig00013 | 51203 | 51592 | MARA | 0/0 | 100.0 | 99.5 | MEG_3662 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA | NA |
| contig00013 | 50754 | 51188 | MARR | 0/0 | 100.0 | 98.2 | MEG_3663 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR | NA |
| contig00040 | 32646 | 33878 | MDFA | 0/0 | 100.0 | 98.1 | MEG_3737 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA | NA |
| contig00010 | 10339 | 11586 | MDTA | 0/0 | 100.0 | 100.0 | MEG_3746 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA | NA |
| contig00010 | 11586 | 14708 | MDTB | 0/0 | 100.0 | 99.8 | MEG_3747 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB | NA |
| contig00010 | 14709 | 17786 | MDTC | 0/0 | 100.0 | 99.8 | MEG_3749 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC | NA |
| contig00011 | 32615 | 33772 | MDTE | 0/0 | 100.0 | 98.5 | MEG_3751 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE | NA |
| contig00011 | 29477 | 32590 | MDTF | 0/0 | 100.0 | 98.5 | MEG_3752 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF | NA |
| contig00055 | 19854 | 21081 | MDTG | 1/1 | 100.0 | 98.0 | MEG_3753 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTG | NA |
| contig00055 | 29712 | 30920 | MDTH | 0/0 | 100.0 | 98.3 | MEG_3755 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH | NA |
| contig00013 | 83513 | 83842 | MDTI | 0/0 | 100.0 | 99.7 | MEG_3756 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI | NA |
| contig00013 | 83829 | 84194 | MDTJ | 0/0 | 100.0 | 98.6 | MEG_3757 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ | NA |
| contig00002 | 182433 | 183805 | MDTK | 0/0 | 99.9 | 98.4 | MEG_3759 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK | NA |
| contig00063 | 259 | 1491 | MDTM | 0/0 | 100.0 | 96.3 | MEG_3761 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTM | NA |
| contig00005 | 93049 | 94080 | MDTN | 0/0 | 100.0 | 96.9 | MEG_3763 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN | NA |
| contig00005 | 90998 | 93049 | MDTO | 0/0 | 100.0 | 96.4 | MEG_3764 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO | NA |
| contig00005 | 89535 | 91001 | MDTP | 0/0 | 100.0 | 97.6 | MEG_3765 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP | NA |
| contig00035 | 8407 | 9328 | MPHA | 1/1 | 100.0 | 99.6 | MEG_4030 | Drugs:MLS:Macrolide_phosphotransferases:MPHA | NA |
| contig00018 | 21933 | 22407 | MPHB | 0/0 | 99.6 | 96.6 | MEG_4033 | Drugs:MLS:Macrolide_phosphotransferases:MPHB | NA |
| contig00054 | 3895 | 5643 | MSBA | 0/0 | 100.0 | 98.7 | MEG_4061 | Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA | NA |
| contig00012 | 19082 | 20983 | PBP2 | 0/0 | 100.0 | 99.0 | MEG_5400 | Drugs:betalactams:Penicillin_binding_protein:PBP2 | NA |
| contig00019 | 5885 | 6853 | PMRF | 0/0 | 100.0 | 98.7 | MEG_5801 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF | NA |
| contig00007 | 137016 | 137885 | ROBA | 0/0 | 100.0 | 99.0 | MEG_6082 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA | NA |
| contig00005 | 67570 | 67892 | SOXS | 0/0 | 99.7 | 98.1 | MEG_6551 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS | NA |
| contig00068 | 6133 | 7100 | SULI | 0/0 | 100.0 | 100.0 | MEG_6615 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI | NA |
| contig00035 | 1355 | 2170 | SULII | 0/0 | 100.0 | 100.0 | MEG_6617 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII | NA |
| contig00014 | 91 | 1336 | TEM | 0/0 | 98.3 | 99.3 | MEG_6875 | Drugs:betalactams:Class_A_betalactamases:TEM | NA |
| contig00023 | 30722 | 31888 | UGD | 0/0 | 100.0 | 99.9 | MEG_7328 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:UGD | NA |
| contig00025 | 25564 | 27207 | YOGI | 0/0 | 100.0 | 96.6 | MEG_7842 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_ABC_efflux_pumps:YOGI | NA |
ID030I
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00049 | 43 | 903 | aac(3)-IIa_1 | 0/0 | 100 | 99.8 | X51534 | aac(3)-IIa | Gentamicin, Tobramycin |
| contig00125 | 1539 | 2138 | aac(6’)-Ib-cr_1 | 0/0 | 100 | 100.0 | DQ303918 | aac(6’)-Ib-cr | Ciprofloxacin |
| contig00161 | 8 | 844 | aph(6)-Id_1 | 0/0 | 100 | 100.0 | M28829 | aph(6)-Id | Streptomycin |
| contig00035 | 47292 | 48167 | blaCTX-M-15_1 | 0/0 | 100 | 100.0 | AY044436 | blaCTX-M-15 | Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin |
| contig00125 | 578 | 1408 | blaOXA-1_1 | 0/0 | 100 | 100.0 | HQ170510 | blaOXA-1 | Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam |
| contig00136 | 146 | 1006 | blaTEM-1B_1 | 0/0 | 100 | 100.0 | AY458016 | blaTEM-1B | Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin |
| contig00238 | 73 | 555 | dfrA14_5 | 0/0 | 100 | 99.8 | DQ388123 | dfrA14 | Trimethoprim |
| contig00096 | 33 | 506 | dfrA17_1 | 0/0 | 100 | 100.0 | FJ460238 | dfrA17 | Trimethoprim |
| contig00015 | 36477 | 37709 | mdf(A)_1 | 0/0 | 100 | 97.9 | Y08743 | mdf(A) | |
| contig00153 | 68 | 989 | mph(A)_2 | 1/1 | 100 | 99.7 | U36578 | mph(A) | Erythromycin, Azithromycin, Spiramycin, Telithromycin |
| contig00103 | 770 | 1975 | tet(B)_2 | 0/0 | 100 | 100.0 | AF326777 | tet(B) | Doxycycline, Tetracycline, Minocycline |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00049 | 43 | 903 | AAC(3)-IIe | 0/0 | 100.0 | 99.5 | EU022315.1:0-861 | AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli | aminoglycoside |
| contig00125 | 1539 | 2138 | AAC(6’)-Ib-cr | 0/0 | 100.0 | 100.0 | DQ303918:0-600 | AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously | aminoglycoside, fluoroquinolone |
| contig00010 | 110280 | 113429 | acrB | 0/0 | 100.0 | 98.8 | U00096.3:484403-481253 | Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00052 | 11373 | 14486 | acrD | 0/0 | 100.0 | 98.5 | AP009048.1:2586250-2589364 | AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. | aminoglycoside |
| contig00019 | 71361 | 72518 | acrE | 0/0 | 100.0 | 98.7 | U00096:3413863-3415021 | AcrE is a membrane fusion protein similar to AcrA. | cephalosporin, cephamycin, fluoroquinolone, penam |
| contig00019 | 72530 | 75634 | acrF | 0/0 | 100.0 | 96.5 | U00096:3415032-3418137 | AcrF is a inner membrane transporter similar to AcrB. | cephalosporin, cephamycin, fluoroquinolone, penam |
| contig00019 | 70300 | 70962 | acrS | 0/0 | 100.0 | 98.3 | U00096:3413465-3412802 | AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. | cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00161 | 8 | 844 | APH(6)-Id | 0/0 | 100.0 | 99.9 | AF024602:3155-3992 | APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum | aminoglycoside |
| contig00002 | 83221 | 84042 | bacA | 0/0 | 100.0 | 100.0 | U00096.3:3204131-3203309 | The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. | peptide |
| contig00011 | 46798 | 47519 | baeR | 0/0 | 99.9 | 96.7 | AP009048.1:2166412-2167135 | BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. | aminocoumarin, aminoglycoside |
| contig00011 | 47516 | 48919 | baeS | 0/0 | 100.0 | 90.5 | AP009048:2165012-2166416 | BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. | aminocoumarin, aminoglycoside |
| contig00006 | 107883 | 109250 | cpxA | 0/0 | 99.6 | 98.6 | BA000007.3:4905062-4903688 | CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. | aminocoumarin, aminoglycoside |
| contig00007 | 15383 | 16015 | CRP | 0/0 | 100.0 | 99.0 | AP009048.1:4154296-4153663 | CRP is a global regulator that represses MdtEF multidrug efflux pump expression. | fluoroquinolone, macrolide, penam |
| contig00035 | 47292 | 48167 | CTX-M-15 | 0/0 | 100.0 | 100.0 | AY044436:1435-2311 | CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family | cephalosporin |
| contig00238 | 73 | 555 | dfrA14 | 0/0 | 100.0 | 100.0 | EU780012:2162-2645 | dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli | diaminopyrimidine |
| contig00096 | 33 | 506 | dfrA17 | 0/0 | 100.0 | 100.0 | DQ838665:0-474 | dfrA17 is an integron-encoded dihydrofolate reductase found in Escherichia coli | diaminopyrimidine |
| contig00075 | 13103 | 14275 | emrA | 0/0 | 100.0 | 98.1 | AP009048:2810082-2811255 | EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. | fluoroquinolone |
| contig00075 | 14292 | 15830 | emrB | 0/0 | 100.0 | 98.1 | U00096:2812615-2814154 | emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. | fluoroquinolone |
| contig00018 | 9515 | 10570 | emrK | 0/0 | 100.0 | 97.3 | D78168:536-1592 | emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. | tetracycline |
| contig00075 | 12446 | 12976 | emrR | 0/0 | 100.0 | 98.5 | U00096.3:2810769-2811300 | EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. | fluoroquinolone |
| contig00018 | 7977 | 9515 | emrY | 0/0 | 100.0 | 97.7 | D78168:1591-3130 | emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. | tetracycline |
| contig00029 | 18381 | 20024 | eptA | 0/0 | 100.0 | 91.1 | AP009048:4340268-4338624 | PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. | peptide |
| contig00010 | 113452 | 114645 | Escherichia_coli_acrA | 0/0 | 100.0 | 99.2 | U00096.3:485619-484425 | AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00063 | 13152 | 14285 | Escherichia_coli_ampC | 0/0 | 100.0 | 98.0 | U00096.3:4378944-4377810 | A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. | cephalosporin, penam |
| contig00010 | 20363 | 21520 | Escherichia_coli_ampH | 0/0 | 100.0 | 97.2 | AP012030.1:396711-395553 | AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. | cephalosporin, penam |
| contig00004 | 170097 | 170429 | Escherichia_coli_emrE | 0/0 | 100.0 | 92.2 | Z11877.1:485-818 | Member of the small MDR (multidrug resistance) family of transporters, in Escherichia coli this protein provides resistance against a number of positively charged compounds including ethidium bromide and erythromycin, proton-dependent secondary transporter which exchanges protons for compound translocation | macrolide |
| contig00015 | 36477 | 37709 | Escherichia_coli_mdfA | 0/0 | 100.0 | 96.3 | JQ394987:0-1233 | Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. | benzalkonium_chloride, rhodamine, tetracycline |
| contig00018 | 11094 | 11708 | evgA | 0/0 | 100.0 | 100.0 | BA000007.3:3212025-3212640 | EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. | fluoroquinolone, macrolide, penam, tetracycline |
| contig00018 | 11713 | 15306 | evgS | 0/0 | 100.0 | 99.4 | U00096:2484373-2487967 | EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. | fluoroquinolone, macrolide, penam, tetracycline |
| contig00057 | 2058 | 2786 | gadW | 0/0 | 100.0 | 99.7 | CP015085.1:2552440-2551711 | GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. | fluoroquinolone, macrolide, penam |
| contig00057 | 865 | 1689 | gadX | 0/0 | 100.0 | 93.8 | AP009048.1:3974604-3975429 | GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. | fluoroquinolone, macrolide, penam |
| contig00055 | 22172 | 22585 | H-NS | 0/0 | 100.0 | 99.3 | BA000007.3:1738104-1737690 | H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. | cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline |
| contig00013 | 106139 | 106811 | kdpE | 0/0 | 99.3 | 95.8 | U00096.3:721733-721055 | kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. | aminoglycoside |
| contig00047 | 8996 | 9379 | marA | 0/0 | 100.0 | 98.4 | AP009048.1:1621287-1621671 | In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. | carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan |
| contig00011 | 56532 | 57779 | mdtA | 0/0 | 100.0 | 95.8 | U00096:2154015-2155263 | MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. | aminocoumarin |
| contig00011 | 53410 | 56532 | mdtB | 0/0 | 100.0 | 95.9 | U00096:2155262-2158385 | MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. | aminocoumarin |
| contig00011 | 50332 | 53409 | mdtC | 0/0 | 100.0 | 93.9 | U00096:2158385-2161463 | MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. | aminocoumarin |
| contig00057 | 6287 | 7444 | mdtE | 0/0 | 100.0 | 98.5 | AP009048.1:3981183-3980025 | MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. | fluoroquinolone, macrolide, penam |
| contig00057 | 3149 | 6262 | mdtF | 0/0 | 100.0 | 97.3 | U00096:3660413-3663527 | MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. | fluoroquinolone, macrolide, penam |
| contig00005 | 145081 | 146307 | mdtG | 0/0 | 100.0 | 98.4 | CP000800.1:1192954-1191727 | The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. | fosfomycin |
| contig00005 | 154938 | 156146 | mdtH | 0/0 | 100.0 | 98.0 | U00096:1125326-1124117 | Multidrug resistance protein MdtH | fluoroquinolone |
| contig00058 | 18497 | 19528 | mdtN | 0/0 | 100.0 | 94.9 | AP009048.1:4307588-4306556 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. | acridine_dye, nucleoside |
| contig00058 | 16446 | 18497 | mdtO | 0/0 | 100.0 | 97.1 | AP009048.1:4306557-4304505 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride | acridine_dye, nucleoside |
| contig00058 | 14983 | 16449 | mdtP | 0/0 | 100.0 | 97.7 | AP009048.1:4304509-4303042 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride | acridine_dye, nucleoside |
| contig00153 | 68 | 973 | mphA | 0/0 | 100.0 | 100.0 | D16251.1:2531-1625 | The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. | macrolide |
| contig00005 | 18448 | 20196 | msbA | 0/0 | 100.0 | 98.1 | U00096.3:966620-968369 | MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. | nitroimidazole |
| contig00125 | 578 | 1408 | OXA-1 | 0/0 | 100.0 | 100.0 | JN420336.1:2230-1399 | OXA-1 is a beta-lactamase found in E. coli | cephalosporin, penam |
| contig00008 | 43089 | 44057 | pmrF | 0/0 | 100.0 | 97.7 | U00096:2367070-2368039 | PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. | peptide |
| contig00136 | 146 | 1006 | TEM-1 | 0/0 | 100.0 | 99.9 | AL513383:161910-162771 | TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. | cephalosporin, monobactam, penam, penem |
| contig00103 | 770 | 1975 | tet(B) | 0/0 | 100.0 | 99.8 | AB089595:0-1206 | Tet(B) is a tetracycline efflux protein expressed in many Gram-negative bacteria. It confers resistance to tetracycline doxycycline and minocycline but not tigecycline. | tetracycline |
| contig00002 | 106420 | 107907 | tolC | 0/0 | 100.0 | 100.0 | FJ768952:0-1488 | TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. | aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan |
| contig00011 | 112160 | 113326 | ugd | 0/0 | 100.0 | 97.0 | U00096:2099613-2098446 | PmrE is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin | peptide |
| contig00028 | 41468 | 43111 | yojI | 0/0 | 100.0 | 97.9 | U00096.3:2308615-2306971 | YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. | peptide |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00049 | 43 | 903 | (AGly)aac3-IIa | 0/0 | 100 | 99.8 | X51534:91-951 | (AGly)aac3-IIa | NA |
| contig00161 | 8 | 844 | (AGly)strB | 0/0 | 100 | 100.0 | FJ474091:264-1100 | (AGly)strB | NA |
| contig00063 | 13152 | 14285 | (Bla)AmpC2_Ecoli | 0/0 | 100 | 98.0 | CP002970:332756-333889 | (Bla)AmpC2_Ecoli | NA |
| contig00010 | 20363 | 21520 | (Bla)ampH_Ecoli | 0/0 | 100 | 97.2 | AP012030:395554-396711 | (Bla)ampH_Ecoli | NA |
| contig00035 | 47292 | 48167 | (Bla)blaCTX-M-15 | 0/0 | 100 | 100.0 | JQ686199:261-1136 | (Bla)blaCTX-M-15 | NA |
| contig00125 | 578 | 1408 | (Bla)blaOXA-1 | 0/0 | 100 | 100.0 | JQ682867:1-831 | (Bla)blaOXA-1 | NA |
| contig00136 | 146 | 1006 | (Bla)blaTEM-105 | 0/0 | 100 | 99.9 | AF516720:215-1075 | (Bla)blaTEM-105 | NA |
| contig00025 | 47337 | 49238 | (Bla)Penicillin_Binding_Protein_Ecoli | 0/0 | 100 | 98.5 | CP002291:664439-666340 | (Bla)Penicillin_Binding_Protein_Ecoli | NA |
| contig00153 | 68 | 973 | (MLS)mph(A) | 0/0 | 100 | 100.0 | DQ445270:1626-2531 | (MLS)mph(A) | NA |
| contig00103 | 770 | 1975 | (Tet)tetB | 0/0 | 100 | 99.7 | AB089594:1-1206 | (Tet)tetB | NA |
| contig00238 | 73 | 546 | (Tmt)dfrA14 | 0/0 | 100 | 99.8 | GU726917:72-545 | (Tmt)dfrA14 | NA |
| contig00096 | 33 | 506 | (Tmt)dfrA17 | 0/0 | 100 | 100.0 | AB126604:98-571 | (Tmt)dfrA17 | NA |
NCBI
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00049 | 43 | 903 | aac(3)-IIe | 0/0 | 100 | 99.8 | NG_047244.1 | aminoglycoside N-acetyltransferase AAC(3)-IIe | GENTAMICIN |
| contig00125 | 1539 | 2093 | aac(6’)-Ib-D181Y | 0/0 | 100 | 99.8 | NG_067946.1 | AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase | AMIKACIN, KANAMYCIN, TOBRAMYCIN |
| contig00161 | 8 | 844 | aph(6)-Id | 0/0 | 100 | 100.0 | NG_047464.1 | aminoglycoside O-phosphotransferase APH(6)-Id | STREPTOMYCIN |
| contig00035 | 47292 | 48167 | blaCTX-M-15 | 0/0 | 100 | 100.0 | NG_048935.1 | class A extended-spectrum beta-lactamase CTX-M-15 | CEPHALOSPORIN |
| contig00063 | 13152 | 14285 | blaEC-5 | 0/0 | 100 | 99.8 | NG_049085.1 | cephalosporin-hydrolyzing class C beta-lactamase EC-5 | CEPHALOSPORIN |
| contig00125 | 578 | 1408 | blaOXA-1 | 0/0 | 100 | 100.0 | NG_049392.1 | oxacillin-hydrolyzing class D beta-lactamase OXA-1 | CEPHALOSPORIN |
| contig00136 | 146 | 1006 | blaTEM-1 | 0/0 | 100 | 100.0 | NG_050145.1 | class A broad-spectrum beta-lactamase TEM-1 | BETA-LACTAM |
| contig00238 | 73 | 546 | dfrA14 | 0/0 | 100 | 100.0 | NG_047696.1 | trimethoprim-resistant dihydrofolate reductase DfrA14 | TRIMETHOPRIM |
| contig00096 | 33 | 506 | dfrA17 | 0/0 | 100 | 99.8 | NG_047710.1 | trimethoprim-resistant dihydrofolate reductase DfrA17 | TRIMETHOPRIM |
| contig00153 | 68 | 989 | mph(A) | 1/1 | 100 | 99.7 | NG_047986.1 | Mph(A) family macrolide 2’-phosphotransferase | MACROLIDE |
| contig00103 | 770 | 1975 | tet(B) | 0/0 | 100 | 100.0 | NG_048163.1 | tetracycline efflux MFS transporter Tet(B) | TETRACYCLINE |
MEGARES
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00049 | 43 | 903 | AAC3 | 0/0 | 100.0 | 99.8 | MEG_44 | Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 | NA |
| contig00010 | 113452 | 114645 | ACRA | 0/0 | 100.0 | 99.2 | MEG_399 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA | NA |
| contig00010 | 110280 | 113429 | ACRB | 0/0 | 100.0 | 98.8 | MEG_401 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB | NA |
| contig00052 | 11373 | 14486 | ACRD | 0/0 | 100.0 | 98.5 | MEG_407 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD | NA |
| contig00019 | 71361 | 72518 | ACRE | 0/0 | 100.0 | 98.7 | MEG_408 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE | NA |
| contig00019 | 72530 | 75634 | ACRF | 0/0 | 100.0 | 96.5 | MEG_409 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF | NA |
| contig00019 | 70300 | 70962 | ACRS | 0/0 | 100.0 | 98.3 | MEG_415 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS | NA |
| contig00010 | 20363 | 21520 | AMPH | 0/0 | 100.0 | 97.2 | MEG_729 | Drugs:betalactams:Penicillin_binding_protein:AMPH | NA |
| contig00161 | 8 | 844 | APH6 | 0/0 | 100.0 | 100.0 | MEG_1086 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 | NA |
| contig00011 | 69442 | 71294 | ASMA | 0/0 | 100.0 | 97.5 | MEG_1180 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA | NA |
| contig00002 | 83221 | 84042 | BACA | 0/0 | 100.0 | 100.0 | MEG_1190 | Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA | NA |
| contig00011 | 46798 | 47519 | BAER | 0/0 | 99.9 | 96.7 | MEG_1192 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER | NA |
| contig00011 | 47516 | 48919 | BAES | 0/0 | 100.0 | 90.5 | MEG_1193 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES | NA |
| contig00028 | 16810 | 18000 | BCR | 0/0 | 100.0 | 96.3 | MEG_1210 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR | NA |
| contig00063 | 13152 | 14285 | BLAEC | 0/0 | 100.0 | 99.8 | MEG_1275 | Drugs:betalactams:Class_C_betalactamases:BLAEC | NA |
| contig00006 | 107188 | 107886 | CPXAR | 0/0 | 100.0 | 97.8 | MEG_2118 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00006 | 107883 | 109250 | CPXAR | 0/0 | 99.6 | 99.0 | MEG_2121 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00007 | 15383 | 16015 | CRP | 0/0 | 100.0 | 99.0 | MEG_2132 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP | NA |
| contig00096 | 33 | 506 | DFRA | 0/0 | 100.0 | 100.0 | MEG_2547 | Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA | NA |
| contig00238 | 73 | 546 | DFRA | 0/0 | 100.0 | 100.0 | MEG_2517 | Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA | NA |
| contig00075 | 13103 | 14275 | EMRA | 0/0 | 100.0 | 98.1 | MEG_2722 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA | NA |
| contig00075 | 14292 | 15830 | EMRB | 0/0 | 100.0 | 98.1 | MEG_2725 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB | NA |
| contig00001 | 24362 | 25552 | EMRD | 0/0 | 100.0 | 97.7 | MEG_2729 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD | NA |
| contig00018 | 9515 | 10678 | EMRK | 0/0 | 100.0 | 97.2 | MEG_2732 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK | NA |
| contig00075 | 12446 | 12976 | EMRR | 0/0 | 100.0 | 98.5 | MEG_2734 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR | NA |
| contig00018 | 7977 | 9515 | EMRY | 0/0 | 100.0 | 97.8 | MEG_2736 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY | NA |
| contig00029 | 18381 | 20024 | EPTA | 0/0 | 100.0 | 91.1 | MEG_2739 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA | NA |
| contig00018 | 11713 | 15306 | EVGS | 0/0 | 100.0 | 99.4 | MEG_2870 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS | NA |
| contig00057 | 2058 | 2786 | GADW | 0/0 | 100.0 | 99.7 | MEG_3082 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW | NA |
| contig00057 | 865 | 1689 | GADX | 0/0 | 100.0 | 93.8 | MEG_3083 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX | NA |
| contig00055 | 22172 | 22585 | HNS | 0/0 | 100.0 | 99.3 | MEG_3271 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS | NA |
| contig00013 | 106139 | 106811 | KDPE | 0/0 | 99.3 | 95.8 | MEG_3448 | Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE | NA |
| contig00047 | 8996 | 9385 | MARA | 0/0 | 100.0 | 98.5 | MEG_3662 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA | NA |
| contig00047 | 9400 | 9834 | MARR | 0/0 | 100.0 | 98.2 | MEG_3663 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR | NA |
| contig00015 | 36477 | 37709 | MDFA | 0/0 | 100.0 | 98.0 | MEG_3737 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA | NA |
| contig00011 | 56532 | 57779 | MDTA | 0/0 | 100.0 | 95.8 | MEG_3746 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA | NA |
| contig00011 | 53410 | 56532 | MDTB | 0/0 | 100.0 | 95.9 | MEG_3747 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB | NA |
| contig00011 | 50332 | 53409 | MDTC | 0/0 | 100.0 | 93.9 | MEG_3749 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC | NA |
| contig00057 | 6287 | 7444 | MDTE | 0/0 | 100.0 | 98.5 | MEG_3751 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE | NA |
| contig00057 | 3149 | 6262 | MDTF | 0/0 | 100.0 | 97.3 | MEG_3752 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF | NA |
| contig00005 | 145081 | 146307 | MDTG | 0/0 | 100.0 | 98.5 | MEG_3753 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTG | NA |
| contig00005 | 154938 | 156146 | MDTH | 0/0 | 100.0 | 98.0 | MEG_3755 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH | NA |
| contig00053 | 23272 | 23601 | MDTI | 0/0 | 100.0 | 98.8 | MEG_3756 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI | NA |
| contig00053 | 23588 | 23953 | MDTJ | 0/0 | 100.0 | 97.5 | MEG_3757 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ | NA |
| contig00020 | 1558 | 2930 | MDTK | 0/0 | 99.9 | 98.4 | MEG_3759 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK | NA |
| contig00058 | 18497 | 19528 | MDTN | 0/0 | 100.0 | 94.9 | MEG_3763 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN | NA |
| contig00058 | 16446 | 18497 | MDTO | 0/0 | 100.0 | 97.1 | MEG_3764 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO | NA |
| contig00058 | 14983 | 16449 | MDTP | 0/0 | 100.0 | 97.7 | MEG_3765 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP | NA |
| contig00153 | 68 | 989 | MPHA | 1/1 | 100.0 | 99.7 | MEG_4030 | Drugs:MLS:Macrolide_phosphotransferases:MPHA | NA |
| contig00005 | 18448 | 20196 | MSBA | 0/0 | 100.0 | 98.1 | MEG_4061 | Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA | NA |
| contig00004 | 170097 | 170429 | MVRC | 0/0 | 100.0 | 92.2 | MEG_4103 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MVRC | NA |
| contig00125 | 578 | 1408 | OXA | 0/0 | 100.0 | 100.0 | MEG_4980 | Drugs:betalactams:Class_D_betalactamases:OXA | NA |
| contig00025 | 47337 | 49238 | PBP2 | 0/0 | 100.0 | 98.5 | MEG_5400 | Drugs:betalactams:Penicillin_binding_protein:PBP2 | NA |
| contig00008 | 43089 | 44057 | PMRF | 0/0 | 100.0 | 97.7 | MEG_5801 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF | NA |
| contig00009 | 44206 | 45075 | ROBA | 0/0 | 100.0 | 97.2 | MEG_6082 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA | NA |
| contig00017 | 13424 | 13746 | SOXS | 0/0 | 99.7 | 98.1 | MEG_6551 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS | NA |
| contig00136 | 128 | 1373 | TEM | 0/0 | 98.3 | 99.4 | MEG_6875 | Drugs:betalactams:Class_A_betalactamases:TEM | NA |
| contig00103 | 770 | 1975 | TETB | 0/0 | 100.0 | 100.0 | MEG_7052 | Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETB | NA |
| contig00103 | 2769 | 3185 | TETD | 0/0 | 100.0 | 100.0 | MEG_7070 | Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETD | NA |
| contig00011 | 112160 | 113326 | UGD | 0/0 | 100.0 | 97.0 | MEG_7328 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:UGD | NA |
| contig00028 | 41468 | 43111 | YOGI | 0/0 | 100.0 | 97.9 | MEG_7842 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_ABC_efflux_pumps:YOGI | NA |
ID042
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00036 | 35448 | 36323 | blaCTX-M-55_1 | 0/0 | 100 | 100.0 | DQ810789 | blaCTX-M-55 | Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin |
| contig00017 | 101270 | 102502 | mdf(A)_1 | 0/0 | 100 | 97.9 | Y08743 | mdf(A) |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00010 | 111532 | 114681 | acrB | 0/0 | 100.0 | 98.8 | U00096.3:484403-481253 | Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00015 | 117169 | 120282 | acrD | 0/0 | 100.0 | 98.5 | AP009048.1:2586250-2589364 | AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. | aminoglycoside |
| contig00012 | 144843 | 146000 | acrE | 0/0 | 100.0 | 98.7 | U00096:3413863-3415021 | AcrE is a membrane fusion protein similar to AcrA. | cephalosporin, cephamycin, fluoroquinolone, penam |
| contig00012 | 146012 | 149116 | acrF | 0/0 | 100.0 | 96.5 | U00096:3415032-3418137 | AcrF is a inner membrane transporter similar to AcrB. | cephalosporin, cephamycin, fluoroquinolone, penam |
| contig00012 | 143782 | 144444 | acrS | 0/0 | 100.0 | 98.3 | U00096:3413465-3412802 | AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. | cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00016 | 65414 | 66235 | bacA | 0/0 | 100.0 | 100.0 | U00096.3:3204131-3203309 | The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. | peptide |
| contig00002 | 213045 | 213766 | baeR | 0/0 | 99.9 | 96.7 | AP009048.1:2166412-2167135 | BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. | aminocoumarin, aminoglycoside |
| contig00002 | 213763 | 215166 | baeS | 0/0 | 100.0 | 90.6 | AP009048:2165012-2166416 | BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. | aminocoumarin, aminoglycoside |
| contig00014 | 74079 | 75446 | cpxA | 0/0 | 99.6 | 98.6 | BA000007.3:4905062-4903688 | CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. | aminocoumarin, aminoglycoside |
| contig00005 | 15383 | 16015 | CRP | 0/0 | 100.0 | 99.0 | AP009048.1:4154296-4153663 | CRP is a global regulator that represses MdtEF multidrug efflux pump expression. | fluoroquinolone, macrolide, penam |
| contig00036 | 35448 | 36323 | CTX-M-55 | 0/0 | 100.0 | 100.0 | DQ885477:0-876 | CTX-M-55 is a beta-lactamase found in the Enterobacteriaceae family | cephalosporin |
| contig00024 | 72010 | 73182 | emrA | 0/0 | 100.0 | 98.1 | AP009048:2810082-2811255 | EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. | fluoroquinolone |
| contig00024 | 73199 | 74737 | emrB | 0/0 | 100.0 | 98.1 | U00096:2812615-2814154 | emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. | fluoroquinolone |
| contig00011 | 84001 | 85056 | emrK | 0/0 | 100.0 | 97.3 | D78168:536-1592 | emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. | tetracycline |
| contig00024 | 71353 | 71883 | emrR | 0/0 | 100.0 | 98.5 | U00096.3:2810769-2811300 | EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. | fluoroquinolone |
| contig00011 | 82463 | 84001 | emrY | 0/0 | 100.0 | 97.7 | D78168:1591-3130 | emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. | tetracycline |
| contig00027 | 42681 | 44324 | eptA | 0/0 | 100.0 | 91.1 | AP009048:4340268-4338624 | PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. | peptide |
| contig00010 | 114704 | 115897 | Escherichia_coli_acrA | 0/0 | 100.0 | 99.2 | U00096.3:485619-484425 | AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00040 | 13292 | 14425 | Escherichia_coli_ampC | 0/0 | 100.0 | 98.0 | U00096.3:4378944-4377810 | A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. | cephalosporin, penam |
| contig00010 | 21615 | 22772 | Escherichia_coli_ampH | 0/0 | 100.0 | 97.2 | AP012030.1:396711-395553 | AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. | cephalosporin, penam |
| contig00007 | 135370 | 135702 | Escherichia_coli_emrE | 0/0 | 100.0 | 92.2 | Z11877.1:485-818 | Member of the small MDR (multidrug resistance) family of transporters, in Escherichia coli this protein provides resistance against a number of positively charged compounds including ethidium bromide and erythromycin, proton-dependent secondary transporter which exchanges protons for compound translocation | macrolide |
| contig00017 | 101270 | 102502 | Escherichia_coli_mdfA | 0/0 | 100.0 | 96.3 | JQ394987:0-1233 | Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. | benzalkonium_chloride, rhodamine, tetracycline |
| contig00011 | 85580 | 86194 | evgA | 0/0 | 100.0 | 100.0 | BA000007.3:3212025-3212640 | EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. | fluoroquinolone, macrolide, penam, tetracycline |
| contig00011 | 86199 | 89792 | evgS | 0/0 | 100.0 | 99.4 | U00096:2484373-2487967 | EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. | fluoroquinolone, macrolide, penam, tetracycline |
| contig00005 | 194273 | 195001 | gadW | 0/0 | 100.0 | 99.7 | CP015085.1:2552440-2551711 | GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. | fluoroquinolone, macrolide, penam |
| contig00005 | 195370 | 196194 | gadX | 0/0 | 100.0 | 93.8 | AP009048.1:3974604-3975429 | GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. | fluoroquinolone, macrolide, penam |
| contig00019 | 22172 | 22585 | H-NS | 0/0 | 100.0 | 99.3 | BA000007.3:1738104-1737690 | H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. | cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline |
| contig00009 | 41351 | 42023 | kdpE | 0/0 | 99.3 | 95.8 | U00096.3:721733-721055 | kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. | aminoglycoside |
| contig00037 | 8996 | 9379 | marA | 0/0 | 100.0 | 98.4 | AP009048.1:1621287-1621671 | In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. | carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan |
| contig00002 | 222779 | 224026 | mdtA | 0/0 | 100.0 | 95.8 | U00096:2154015-2155263 | MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. | aminocoumarin |
| contig00002 | 219657 | 222779 | mdtB | 0/0 | 100.0 | 95.9 | U00096:2155262-2158385 | MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. | aminocoumarin |
| contig00002 | 216579 | 219656 | mdtC | 0/0 | 100.0 | 93.9 | U00096:2158385-2161463 | MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. | aminocoumarin |
| contig00005 | 189615 | 190772 | mdtE | 0/0 | 100.0 | 98.5 | AP009048.1:3981183-3980025 | MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. | fluoroquinolone, macrolide, penam |
| contig00005 | 190797 | 193910 | mdtF | 0/0 | 100.0 | 97.3 | U00096:3660413-3663527 | MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. | fluoroquinolone, macrolide, penam |
| contig00001 | 209697 | 210923 | mdtG | 0/0 | 100.0 | 98.4 | CP000800.1:1192954-1191727 | The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. | fosfomycin |
| contig00001 | 219554 | 220762 | mdtH | 0/0 | 100.0 | 98.0 | U00096:1125326-1124117 | Multidrug resistance protein MdtH | fluoroquinolone |
| contig00027 | 12423 | 13454 | mdtN | 0/0 | 100.0 | 94.9 | AP009048.1:4307588-4306556 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. | acridine_dye, nucleoside |
| contig00027 | 10372 | 12423 | mdtO | 0/0 | 100.0 | 97.1 | AP009048.1:4306557-4304505 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride | acridine_dye, nucleoside |
| contig00027 | 8909 | 10375 | mdtP | 0/0 | 100.0 | 97.7 | AP009048.1:4304509-4303042 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride | acridine_dye, nucleoside |
| contig00001 | 83064 | 84812 | msbA | 0/0 | 100.0 | 98.1 | U00096.3:966620-968369 | MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. | nitroimidazole |
| contig00002 | 16442 | 17410 | pmrF | 0/0 | 100.0 | 97.7 | U00096:2367070-2368039 | PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. | peptide |
| contig00016 | 41549 | 43036 | tolC | 0/0 | 100.0 | 100.0 | FJ768952:0-1488 | TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. | aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan |
| contig00028 | 51533 | 52699 | ugd | 0/0 | 100.0 | 97.0 | U00096:2099613-2098446 | PmrE is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin | peptide |
| contig00002 | 75942 | 77585 | yojI | 0/0 | 100.0 | 97.9 | U00096.3:2308615-2306971 | YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. | peptide |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00040 | 13292 | 14425 | (Bla)AmpC2_Ecoli | 0/0 | 100 | 98.0 | CP002970:332756-333889 | (Bla)AmpC2_Ecoli | NA |
| contig00010 | 21615 | 22772 | (Bla)ampH_Ecoli | 0/0 | 100 | 97.2 | AP012030:395554-396711 | (Bla)ampH_Ecoli | NA |
| contig00036 | 35448 | 36323 | (Bla)blaCTX-M-55 | 0/0 | 100 | 100.0 | HM748991:321-1196 | (Bla)blaCTX-M-55 | NA |
| contig00009 | 95011 | 96912 | (Bla)Penicillin_Binding_Protein_Ecoli | 0/0 | 100 | 98.5 | CP002291:664439-666340 | (Bla)Penicillin_Binding_Protein_Ecoli | NA |
NCBI
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00036 | 35448 | 36323 | blaCTX-M-55 | 0/0 | 100 | 100.0 | NG_049006.1 | class A extended-spectrum beta-lactamase CTX-M-55 | CEPHALOSPORIN |
| contig00040 | 13292 | 14425 | blaEC-5 | 0/0 | 100 | 99.8 | NG_049085.1 | cephalosporin-hydrolyzing class C beta-lactamase EC-5 | CEPHALOSPORIN |
MEGARES
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00010 | 114704 | 115897 | ACRA | 0/0 | 100.0 | 99.2 | MEG_399 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA | NA |
| contig00010 | 111532 | 114681 | ACRB | 0/0 | 100.0 | 98.8 | MEG_401 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB | NA |
| contig00015 | 117169 | 120282 | ACRD | 0/0 | 100.0 | 98.5 | MEG_407 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD | NA |
| contig00012 | 144843 | 146000 | ACRE | 0/0 | 100.0 | 98.7 | MEG_408 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE | NA |
| contig00012 | 146012 | 149116 | ACRF | 0/0 | 100.0 | 96.5 | MEG_409 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF | NA |
| contig00012 | 143782 | 144444 | ACRS | 0/0 | 100.0 | 98.3 | MEG_415 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS | NA |
| contig00010 | 21615 | 22772 | AMPH | 0/0 | 100.0 | 97.2 | MEG_729 | Drugs:betalactams:Penicillin_binding_protein:AMPH | NA |
| contig00002 | 235689 | 237541 | ASMA | 0/0 | 100.0 | 97.5 | MEG_1180 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA | NA |
| contig00016 | 65414 | 66235 | BACA | 0/0 | 100.0 | 100.0 | MEG_1190 | Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA | NA |
| contig00002 | 213045 | 213766 | BAER | 0/0 | 99.9 | 96.7 | MEG_1192 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER | NA |
| contig00002 | 213763 | 215166 | BAES | 0/0 | 100.0 | 90.6 | MEG_1193 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES | NA |
| contig00002 | 101053 | 102243 | BCR | 0/0 | 100.0 | 96.3 | MEG_1210 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR | NA |
| contig00040 | 13292 | 14425 | BLAEC | 0/0 | 100.0 | 99.8 | MEG_1275 | Drugs:betalactams:Class_C_betalactamases:BLAEC | NA |
| contig00014 | 73384 | 74082 | CPXAR | 0/0 | 100.0 | 97.8 | MEG_2118 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00014 | 74079 | 75446 | CPXAR | 0/0 | 99.6 | 99.0 | MEG_2121 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00005 | 15383 | 16015 | CRP | 0/0 | 100.0 | 99.0 | MEG_2132 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP | NA |
| contig00036 | 35202 | 36694 | CTX | 1/7 | 100.0 | 99.3 | MEG_2421 | Drugs:betalactams:Class_A_betalactamases:CTX | NA |
| contig00024 | 72010 | 73182 | EMRA | 0/0 | 100.0 | 98.1 | MEG_2722 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA | NA |
| contig00024 | 73199 | 74737 | EMRB | 0/0 | 100.0 | 98.1 | MEG_2725 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB | NA |
| contig00008 | 6009 | 7199 | EMRD | 0/0 | 100.0 | 97.7 | MEG_2729 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD | NA |
| contig00011 | 84001 | 85164 | EMRK | 0/0 | 100.0 | 97.2 | MEG_2732 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK | NA |
| contig00024 | 71353 | 71883 | EMRR | 0/0 | 100.0 | 98.5 | MEG_2734 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR | NA |
| contig00011 | 82463 | 84001 | EMRY | 0/0 | 100.0 | 97.8 | MEG_2736 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY | NA |
| contig00027 | 42681 | 44324 | EPTA | 0/0 | 100.0 | 91.1 | MEG_2739 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA | NA |
| contig00011 | 86199 | 89792 | EVGS | 0/0 | 100.0 | 99.4 | MEG_2870 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS | NA |
| contig00005 | 194273 | 195001 | GADW | 0/0 | 100.0 | 99.7 | MEG_3082 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW | NA |
| contig00005 | 195370 | 196194 | GADX | 0/0 | 100.0 | 93.8 | MEG_3083 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX | NA |
| contig00019 | 22172 | 22585 | HNS | 0/0 | 100.0 | 99.3 | MEG_3271 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS | NA |
| contig00009 | 41351 | 42023 | KDPE | 0/0 | 99.3 | 95.8 | MEG_3448 | Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE | NA |
| contig00037 | 8996 | 9385 | MARA | 0/0 | 100.0 | 98.5 | MEG_3662 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA | NA |
| contig00037 | 9400 | 9834 | MARR | 0/0 | 100.0 | 98.2 | MEG_3663 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR | NA |
| contig00017 | 101270 | 102502 | MDFA | 0/0 | 100.0 | 98.0 | MEG_3737 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA | NA |
| contig00002 | 222779 | 224026 | MDTA | 0/0 | 100.0 | 95.8 | MEG_3746 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA | NA |
| contig00002 | 219657 | 222779 | MDTB | 0/0 | 100.0 | 95.9 | MEG_3747 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB | NA |
| contig00002 | 216579 | 219656 | MDTC | 0/0 | 100.0 | 93.9 | MEG_3749 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC | NA |
| contig00005 | 189615 | 190772 | MDTE | 0/0 | 100.0 | 98.5 | MEG_3751 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE | NA |
| contig00005 | 190797 | 193910 | MDTF | 0/0 | 100.0 | 97.3 | MEG_3752 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF | NA |
| contig00001 | 209697 | 210923 | MDTG | 0/0 | 100.0 | 98.5 | MEG_3753 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTG | NA |
| contig00001 | 219554 | 220762 | MDTH | 0/0 | 100.0 | 98.0 | MEG_3755 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH | NA |
| contig00013 | 110580 | 110909 | MDTI | 0/0 | 100.0 | 98.8 | MEG_3756 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI | NA |
| contig00013 | 110228 | 110593 | MDTJ | 0/0 | 100.0 | 97.5 | MEG_3757 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ | NA |
| contig00013 | 28293 | 29665 | MDTK | 0/0 | 99.9 | 98.4 | MEG_3759 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK | NA |
| contig00027 | 12423 | 13454 | MDTN | 0/0 | 100.0 | 94.9 | MEG_3763 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN | NA |
| contig00027 | 10372 | 12423 | MDTO | 0/0 | 100.0 | 97.1 | MEG_3764 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO | NA |
| contig00027 | 8909 | 10375 | MDTP | 0/0 | 100.0 | 97.7 | MEG_3765 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP | NA |
| contig00001 | 83064 | 84812 | MSBA | 0/0 | 100.0 | 98.1 | MEG_4061 | Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA | NA |
| contig00007 | 135370 | 135702 | MVRC | 0/0 | 100.0 | 92.2 | MEG_4103 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MVRC | NA |
| contig00009 | 95011 | 96912 | PBP2 | 0/0 | 100.0 | 98.5 | MEG_5400 | Drugs:betalactams:Penicillin_binding_protein:PBP2 | NA |
| contig00002 | 16442 | 17410 | PMRF | 0/0 | 100.0 | 97.7 | MEG_5801 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF | NA |
| contig00003 | 132918 | 133787 | ROBA | 0/0 | 100.0 | 97.2 | MEG_6082 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA | NA |
| contig00029 | 19373 | 19695 | SOXS | 0/0 | 99.7 | 98.1 | MEG_6551 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS | NA |
| contig00028 | 51533 | 52699 | UGD | 0/0 | 100.0 | 97.0 | MEG_7328 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:UGD | NA |
| contig00002 | 75942 | 77585 | YOGI | 0/0 | 100.0 | 97.9 | MEG_7842 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_ABC_efflux_pumps:YOGI | NA |
ID049
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00075 | 4779 | 5639 | aac(3)-IId_1 | 0/0 | 100.0 | 99.9 | EU022314 | aac(3)-IId | Gentamicin, Tobramycin |
| contig00070 | 901 | 1702 | aadA2_1 | 0/0 | 97.9 | 99.9 | NC_010870 | aadA2 | Streptomycin |
| contig00082 | 2324 | 3199 | blaCTX-M-15_1 | 0/0 | 100.0 | 100.0 | AY044436 | blaCTX-M-15 | Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin |
| contig00104 | 79 | 939 | blaTEM-1B_1 | 0/0 | 100.0 | 100.0 | AY458016 | blaTEM-1B | Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin |
| contig00072 | 5984 | 6643 | catA1_1 | 0/0 | 100.0 | 99.8 | V00622 | catA1 | Chloramphenicol |
| contig00098 | 90 | 731 | catA2_1 | 0/0 | 100.0 | 96.1 | X53796 | catA2 | Chloramphenicol |
| contig00070 | 6 | 503 | dfrA12_8 | 0/0 | 100.0 | 100.0 | AM040708 | dfrA12 | Trimethoprim |
| contig00002 | 10013 | 11245 | mdf(A)_1 | 0/0 | 100.0 | 99.9 | Y08743 | mdf(A) | |
| contig00097 | 69 | 990 | mph(A)_2 | 1/1 | 100.0 | 99.7 | U36578 | mph(A) | Erythromycin, Azithromycin, Spiramycin, Telithromycin |
| contig00087 | 219 | 875 | qnrS1_1 | 0/0 | 100.0 | 100.0 | AB187515 | qnrS1 | Ciprofloxacin |
| contig00070 | 2180 | 3046 | sul1_5 | 0/0 | 100.0 | 99.9 | EU780013 | sul1 | Sulfamethoxazole |
| contig00086 | 109 | 900 | sul3_2 | 0/0 | 100.0 | 100.0 | AJ459418 | sul3 | Sulfamethoxazole |
| contig00078 | 2413 | 3659 | tet(A)_6 | 0/0 | 97.8 | 99.9 | AF534183 | tet(A) | Doxycycline, Tetracycline |
| contig00083 | 800 | 2005 | tet(B)_2 | 0/0 | 100.0 | 100.0 | AF326777 | tet(B) | Doxycycline, Tetracycline, Minocycline |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00075 | 4779 | 5639 | AAC(3)-IId | 0/0 | 100.0 | 99.9 | EU022314.1:0-861 | AAC(3)-IId is a plasmid-encoded aminoglycoside acetyltransferase in E. coli | aminoglycoside |
| contig00070 | 923 | 1702 | aadA2 | 0/0 | 100.0 | 99.9 | AF156486:5012-5792 | aadA2 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in K. pneumoniae Salmonella spp. Corynebacterium glutamicum C. freundii and Aeromonas spp. | aminoglycoside |
| contig00006 | 39033 | 42182 | acrB | 0/0 | 100.0 | 100.0 | U00096.3:484403-481253 | Protein subunit of AcrA-AcrB-TolC multidrug efflux complex. AcrB functions as a herterotrimer which forms the inner membrane component and is primarily responsible for substrate recognition and energy transduction by acting as a drug/proton antiporter. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00008 | 71642 | 74755 | acrD | 0/0 | 100.0 | 100.0 | AP009048.1:2586250-2589364 | AcrD is an aminoglycoside efflux pump expressed in E. coli. Its expression can be induced by indole and is regulated by baeRS and cpxAR. | aminoglycoside |
| contig00036 | 8480 | 9637 | acrE | 0/0 | 100.0 | 99.9 | U00096:3413863-3415021 | AcrE is a membrane fusion protein similar to AcrA. | cephalosporin, cephamycin, fluoroquinolone, penam |
| contig00036 | 5364 | 8468 | acrF | 0/0 | 100.0 | 99.9 | U00096:3415032-3418137 | AcrF is a inner membrane transporter similar to AcrB. | cephalosporin, cephamycin, fluoroquinolone, penam |
| contig00036 | 10036 | 10698 | acrS | 0/0 | 100.0 | 100.0 | U00096:3413465-3412802 | AcrS is a repressor of the AcrAB efflux complex and is associated with the expression of AcrEF. AcrS is believed to regulate a switch between AcrAB and AcrEF efflux. | cephalosporin, cephamycin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00004 | 146459 | 147280 | bacA | 0/0 | 100.0 | 98.7 | U00096.3:3204131-3203309 | The bacA gene product (BacA) recycles undecaprenyl pyrophosphate during cell wall biosynthesis which confers resistance to bacitracin. | peptide |
| contig00013 | 31061 | 31783 | baeR | 0/0 | 100.0 | 99.5 | AP009048.1:2166412-2167135 | BaeR is a response regulator that promotes the expression of MdtABC and AcrD efflux complexes. | aminocoumarin, aminoglycoside |
| contig00013 | 31780 | 33183 | baeS | 0/0 | 100.0 | 99.9 | AP009048:2165012-2166416 | BaeS is a sensor kinase in the BaeSR regulatory system. While it phosphorylates BaeR to increase its activity BaeS is not necessary for overexpressed BaeR to confer resistance. | aminocoumarin, aminoglycoside |
| contig00072 | 5984 | 6643 | catI | 0/0 | 100.0 | 99.8 | V00622:243-903 | catI is a chromosome and transposon-encoded variant of the cat gene found in Escherichia coli and Acinetobacter baumannii | phenicol |
| contig00098 | 90 | 731 | catII_from_Escherichia_coli_K-12 | 0/0 | 100.0 | 96.1 | X53796.1:186-828 | catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. | phenicol |
| contig00027 | 61530 | 62903 | cpxA | 0/0 | 100.0 | 99.0 | BA000007.3:4905062-4903688 | CpxA is a membrane-localized sensor kinase that is activated by envelope stress. It starts a kinase cascade that activates CpxR which promotes efflux complex expression. | aminocoumarin, aminoglycoside |
| contig00005 | 15387 | 16019 | CRP | 0/0 | 100.0 | 99.4 | AP009048.1:4154296-4153663 | CRP is a global regulator that represses MdtEF multidrug efflux pump expression. | fluoroquinolone, macrolide, penam |
| contig00082 | 2324 | 3199 | CTX-M-15 | 0/0 | 100.0 | 100.0 | AY044436:1435-2311 | CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family | cephalosporin |
| contig00070 | 6 | 503 | dfrA12 | 0/0 | 100.0 | 100.0 | GU585907.1:22103-21605 | dfrA12 is an integron-encoded dihydrofolate reductase found in Vibrio cholerae | diaminopyrimidine |
| contig00001 | 58458 | 59630 | emrA | 0/0 | 100.0 | 100.0 | AP009048:2810082-2811255 | EmrA is a membrane fusion protein providing an efflux pathway with EmrB and TolC between the inner and outer membranes of E. coli a Gram-negative bacterium. | fluoroquinolone |
| contig00001 | 59647 | 61185 | emrB | 0/0 | 100.0 | 100.0 | U00096:2812615-2814154 | emrB is a translocase in the emrB -TolC efflux protein in E. coli. It recognizes substrates including carbonyl cyanide m-chlorophenylhydrazone (CCCP) nalidixic acid and thioloactomycin. | fluoroquinolone |
| contig00009 | 121400 | 122455 | emrK | 0/0 | 100.0 | 99.9 | D78168:536-1592 | emrK is a membrane fusion protein that is a homolog of EmrA. Together with the inner membrane transporter EmrY and the outer membrane channel TolC it mediates multidrug efflux. | tetracycline |
| contig00001 | 57801 | 58331 | emrR | 0/0 | 100.0 | 99.8 | U00096.3:2810769-2811300 | EmrR is a negative regulator for the EmrAB-TolC multidrug efflux pump in E. coli. Mutations lead to EmrAB-TolC overexpression. | fluoroquinolone |
| contig00009 | 119862 | 121400 | emrY | 0/0 | 100.0 | 99.9 | D78168:1591-3130 | emrY is a multidrug transport that moves substrates across the inner membrane of the Gram-negative E. coli. It is a homolog of emrB. | tetracycline |
| contig00012 | 99939 | 101582 | eptA | 0/0 | 100.0 | 99.9 | AP009048:4340268-4338624 | PmrC mediates the modification of Lipid A by the addition of 4-amino-4-deoxy-L-arabinose (L-Ara4N) and phosphoethanolamine resulting in a less negative cell membrane and decreased binding of polymyxin B. | peptide |
| contig00006 | 37817 | 39010 | Escherichia_coli_acrA | 0/0 | 100.0 | 100.0 | U00096.3:485619-484425 | AcrA is a subunit of the AcrAB-TolC multidrug efflux system that in E. coli. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00012 | 65398 | 66531 | Escherichia_coli_ampC | 0/0 | 100.0 | 97.3 | U00096.3:4378944-4377810 | A class C ampC beta-lactamase (cephalosporinase) enzyme described in Escherichia coli shown clinically to confer resistance to penicillin-like and cephalosporin-class antibiotics. | cephalosporin, penam |
| contig00008 | 106154 | 107458 | Escherichia_coli_ampC1_beta-lactamase | 0/0 | 100.0 | 99.9 | FN649414.1:2765050-2766355 | An ampC-like beta-lactamase identified from Escherichia coli. | cephalosporin, penam |
| contig00006 | 127045 | 128202 | Escherichia_coli_ampH | 0/0 | 100.0 | 100.0 | AP012030.1:396711-395553 | AmpH is a class C ampC-like beta-lactamase and penicillin-binding protein identified in Escherichia coli. | cephalosporin, penam |
| contig00002 | 10013 | 11245 | Escherichia_coli_mdfA | 0/0 | 100.0 | 98.4 | JQ394987:0-1233 | Multidrug efflux pump in E. coli. This multidrug efflux system was originally identified as the Cmr/CmlA chloramphenicol exporter. | benzalkonium_chloride, rhodamine, tetracycline |
| contig00009 | 122978 | 123592 | evgA | 0/0 | 100.0 | 100.0 | BA000007.3:3212025-3212640 | EvgA when phosphorylated is a positive regulator for efflux protein complexes emrKY and mdtEF. While usually phosphorylated in a EvgS dependent manner it can be phosphorylated in the absence of EvgS when overexpressed. | fluoroquinolone, macrolide, penam, tetracycline |
| contig00009 | 123597 | 127190 | evgS | 0/0 | 100.0 | 100.0 | U00096:2484373-2487967 | EvgS is a sensor protein that phosphorylates the regulatory protein EvgA. evgS corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. | fluoroquinolone, macrolide, penam, tetracycline |
| contig00042 | 1783 | 2511 | gadW | 0/0 | 100.0 | 94.7 | CP015085.1:2552440-2551711 | GadW is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. GadW inhibits GadX-dependent activation. GadW clearly represses gadX and in situations where GadX is missing activates gadA and gadBC. | fluoroquinolone, macrolide, penam |
| contig00042 | 592 | 1416 | gadX | 0/0 | 100.0 | 100.0 | AP009048.1:3974604-3975429 | GadX is an AraC-family regulator that promotes mdtEF expression to confer multidrug resistance. | fluoroquinolone, macrolide, penam |
| contig00029 | 61368 | 61781 | H-NS | 0/0 | 100.0 | 99.3 | BA000007.3:1738104-1737690 | H-NS is a histone-like protein involved in global gene regulation in Gram-negative bacteria. It is a repressor of the membrane fusion protein genes acrE mdtE and emrK as well as nearby genes of many RND-type multidrug exporters. | cephalosporin, cephamycin, fluoroquinolone, macrolide, penam, tetracycline |
| contig00010 | 8068 | 8745 | kdpE | 0/0 | 100.0 | 100.0 | U00096.3:721733-721055 | kdpE is a transcriptional activator that is part of the two-component system KdpD/KdpE that is studied for its regulatory role in potassium transport and has been identified as an adaptive regulator involved in the virulence and intracellular survival of pathogenic bacteria. kdpE regulates a range of virulence loci through direct promoter binding. | aminoglycoside |
| contig00049 | 22981 | 23364 | marA | 0/0 | 100.0 | 100.0 | AP009048.1:1621287-1621671 | In the presence of antibiotic stress E. coli overexpresses the global activator protein MarA which besides inducing MDR efflux pump AcrAB also down- regulates synthesis of the porin OmpF. | carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, monobactam, penam, penem, phenicol, rifamycin, tetracycline, triclosan |
| contig00013 | 40796 | 42043 | mdtA | 0/0 | 100.0 | 98.0 | U00096:2154015-2155263 | MdtA is the membrane fusion protein of the multidrug efflux complex mdtABC. | aminocoumarin |
| contig00013 | 37674 | 40796 | mdtB | 0/0 | 100.0 | 99.8 | U00096:2155262-2158385 | MdtB is a transporter that forms a heteromultimer complex with MdtC to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. | aminocoumarin |
| contig00013 | 34596 | 37673 | mdtC | 0/0 | 100.0 | 99.9 | U00096:2158385-2161463 | MdtC is a transporter that forms a heteromultimer complex with MdtB to form a multidrug transporter. MdtBC is part of the MdtABC-TolC efflux complex. In the absence of MdtB MdtC can form a homomultimer complex that results in a functioning efflux complex with a narrower drug specificity. mdtC corresponds to 3 loci in Pseudomonas aeruginosa PAO1 (gene name: muxC/muxB) and 3 loci in Pseudomonas aeruginosa LESB58. | aminocoumarin |
| contig00042 | 6012 | 7169 | mdtE | 0/0 | 100.0 | 100.0 | AP009048.1:3981183-3980025 | MdtE is the membrane fusion protein of the MdtEF multidrug efflux complex. It shares 70% sequence similarity with AcrA. | fluoroquinolone, macrolide, penam |
| contig00042 | 2874 | 5987 | mdtF | 0/0 | 100.0 | 100.0 | U00096:3660413-3663527 | MdtF is the multidrug inner membrane transporter for the MdtEF-TolC efflux complex. | fluoroquinolone, macrolide, penam |
| contig00015 | 16670 | 17896 | mdtG | 0/0 | 100.0 | 99.4 | CP000800.1:1192954-1191727 | The MdtG protein also named YceE appears to be a member of the major facilitator superfamily of transporters and it has been reported when overexpressed to increase fosfomycin and deoxycholate resistances. mdtG is a member of the marA-soxS-rob regulon. | fosfomycin |
| contig00015 | 26525 | 27733 | mdtH | 0/0 | 100.0 | 100.0 | U00096:1125326-1124117 | Multidrug resistance protein MdtH | fluoroquinolone |
| contig00048 | 473 | 1684 | mdtM | 0/0 | 98.3 | 95.5 | U00096.3:4568519-4567286 | Multidrug resistance protein MdtM | acridine_dye, fluoroquinolone, lincosamide, nucleoside, phenicol |
| contig00030 | 21853 | 22884 | mdtN | 0/0 | 100.0 | 100.0 | AP009048.1:4307588-4306556 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride. | acridine_dye, nucleoside |
| contig00030 | 22884 | 24935 | mdtO | 0/0 | 100.0 | 100.0 | AP009048.1:4306557-4304505 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride | acridine_dye, nucleoside |
| contig00030 | 24932 | 26398 | mdtP | 0/0 | 100.0 | 100.0 | AP009048.1:4304509-4303042 | Multidrug resistance efflux pump. Could be involved in resistance to puromycin acriflavine and tetraphenylarsonium chloride | acridine_dye, nucleoside |
| contig00097 | 69 | 974 | mphA | 0/0 | 100.0 | 100.0 | D16251.1:2531-1625 | The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. | macrolide |
| contig00008 | 50480 | 50956 | mphB | 0/0 | 100.0 | 98.3 | AE005174.2:3397370-3397847 | The mphB gene encodes for MPH(2’)-II. This enzymes phosphorylates 14-membered and 16-membered macrolides. It phosphorylates macrolides in GTP- dependent manner at 2’-OH hydroxyl of desosamine sugar of macrolides. | macrolide |
| contig00002 | 92961 | 94709 | msbA | 0/0 | 100.0 | 100.0 | U00096.3:966620-968369 | MsbA is a multidrug resistance transporter homolog from E. coli and belongs to a superfamily of transporters that contain an adenosine triphosphate (ATP) binding cassette (ABC) which is also called a nucleotide-binding domain (NBD). MsbA is a member of the MDR-ABC transporter group by sequence homology. MsbA transports lipid A a major component of the bacterial outer cell membrane and is the only bacterial ABC transporter that is essential for cell viability. | nitroimidazole |
| contig00009 | 17667 | 18635 | pmrF | 0/0 | 100.0 | 100.0 | U00096:2367070-2368039 | PmrF is required for the synthesis and transfer of 4-amino-4-deoxy-L-arabinose (Ara4N) to Lipid A which allows gram-negative bacteria to resist the antimicrobial activity of cationic antimicrobial peptides and antibiotics such as polymyxin. pmrF corresponds to 1 locus in Pseudomonas aeruginosa PAO1 and 1 locus in Pseudomonas aeruginosa LESB58. | peptide |
| contig00087 | 219 | 875 | QnrS1 | 0/0 | 100.0 | 100.0 | DQ485529.1:0-657 | QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri | fluoroquinolone |
| contig00070 | 2207 | 3046 | sul1 | 0/0 | 100.0 | 100.0 | JF969163:1053-1893 | Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. | sulfonamide |
| contig00086 | 109 | 900 | sul3 | 0/0 | 100.0 | 100.0 | FJ196385:9323-8531 | Sul3 is a sulfonamide resistant dihydropteroate synthase similar to Sul1 and Sul2. Its resistance gene was found encoded in E. coli plasmid DNA of sulfonamide resistant isolates. | sulfonamide |
| contig00104 | 79 | 939 | TEM-1 | 0/0 | 100.0 | 99.9 | AL513383:161910-162771 | TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. | cephalosporin, monobactam, penam, penem |
| contig00078 | 2413 | 3659 | tet(A) | 0/0 | 97.8 | 99.9 | AF534183.1:2970-4245 | TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. | tetracycline |
| contig00083 | 800 | 2005 | tet(B) | 0/0 | 100.0 | 99.8 | AB089595:0-1206 | Tet(B) is a tetracycline efflux protein expressed in many Gram-negative bacteria. It confers resistance to tetracycline doxycycline and minocycline but not tigecycline. | tetracycline |
| contig00004 | 122595 | 124082 | tolC | 0/0 | 100.0 | 99.7 | FJ768952:0-1488 | TolC is a protein subunit of many multidrug efflux complexes in Gram negative bacteria. It is an outer membrane efflux protein and is constitutively open. Regulation of efflux activity is often at its periplasmic entrance by other components of the efflux complex. | aminocoumarin, aminoglycoside, carbapenem, cephalosporin, cephamycin, fluoroquinolone, glycylcycline, macrolide, penam, penem, peptide, phenicol, rifamycin, tetracycline, triclosan |
| contig00040 | 42513 | 44156 | yojI | 0/0 | 100.0 | 100.0 | U00096.3:2308615-2306971 | YojI mediates resistance to the peptide antibiotic microcin J25 when it is expressed from a multicopy vector. YojI is capable of pumping out microcin molecules. The outer membrane protein TolC in addition to YojI is required for export of microcin J25 out of the cell. Microcin J25 is thus the first known substrate for YojI. | peptide |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00075 | 4779 | 5639 | (AGly)aac3-IId | 0/0 | 100 | 99.9 | EU022314:1-861 | (AGly)aac3-IId | NA |
| contig00070 | 923 | 1702 | (AGly)aadA2 | 0/0 | 100 | 99.9 | X68227:66-945 | (AGly)aadA2 | NA |
| contig00008 | 106154 | 107458 | (Bla)AmpC1_Ecoli | 0/0 | 100 | 99.9 | FN649414:2765051-2766355 | (Bla)AmpC1_Ecoli | NA |
| contig00012 | 65398 | 66531 | (Bla)AmpC2_Ecoli | 0/0 | 100 | 97.3 | CP002970:332756-333889 | (Bla)AmpC2_Ecoli | NA |
| contig00006 | 127045 | 128202 | (Bla)ampH_Ecoli | 0/0 | 100 | 100.0 | AP012030:395554-396711 | (Bla)ampH_Ecoli | NA |
| contig00082 | 2324 | 3199 | (Bla)blaCTX-M-15 | 0/0 | 100 | 100.0 | JQ686199:261-1136 | (Bla)blaCTX-M-15 | NA |
| contig00104 | 79 | 939 | (Bla)blaTEM-105 | 0/0 | 100 | 99.9 | AF516720:215-1075 | (Bla)blaTEM-105 | NA |
| contig00010 | 60155 | 62056 | (Bla)Penicillin_Binding_Protein_Ecoli | 0/0 | 100 | 100.0 | CP002291:664439-666340 | (Bla)Penicillin_Binding_Protein_Ecoli | NA |
| contig00087 | 219 | 875 | (Flq)qnr-S1 | 0/0 | 100 | 100.0 | AB187515:9737-10393 | (Flq)qnr-S1 | NA |
| contig00097 | 69 | 974 | (MLS)mph(A) | 0/0 | 100 | 100.0 | DQ445270:1626-2531 | (MLS)mph(A) | NA |
| contig00072 | 5984 | 6643 | (Phe)catA1 | 0/0 | 100 | 99.8 | V00622:244-903 | (Phe)catA1 | NA |
| contig00098 | 90 | 731 | (Phe)catA2 | 0/0 | 100 | 96.1 | X53796:187-903 | (Phe)catA2 | NA |
| contig00070 | 2207 | 3046 | (Sul)sul1 | 0/0 | 100 | 100.0 | AF071413:6700-7539 | (Sul)sul1 | NA |
| contig00086 | 109 | 900 | (Sul)sul3 | 0/0 | 100 | 100.0 | HQ875016:7396-8187 | (Sul)sul3 | NA |
| contig00078 | 2385 | 3659 | (Tet)tetA | 0/0 | 100 | 99.9 | JX424423:94438-95712 | (Tet)tetA | NA |
| contig00083 | 800 | 2005 | (Tet)tetB | 0/0 | 100 | 99.7 | AB089594:1-1206 | (Tet)tetB | NA |
| contig00078 | 3690 | 4340 | (Tet)tetR | 0/0 | 100 | 99.8 | HF545434:53576-54226 | (Tet)tetR | NA |
| contig00070 | 6 | 503 | (Tmt)dfrA12 | 0/0 | 100 | 100.0 | Z21672:310-807 | (Tmt)dfrA12 | NA |
NCBI
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00075 | 4779 | 5639 | aac(3)-IId | 0/0 | 100 | 100.0 | NG_047251.1 | aminoglycoside N-acetyltransferase AAC(3)-IId | GENTAMICIN |
| contig00070 | 911 | 1702 | aadA2 | 0/0 | 100 | 100.0 | NG_047343.1 | ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA2 | STREPTOMYCIN |
| contig00082 | 2324 | 3199 | blaCTX-M-15 | 0/0 | 100 | 100.0 | NG_048935.1 | class A extended-spectrum beta-lactamase CTX-M-15 | CEPHALOSPORIN |
| contig00012 | 65398 | 66531 | blaEC-15 | 0/0 | 100 | 98.5 | NG_049081.1 | class C extended-spectrum beta-lactamase EC-15 | CEPHALOSPORIN |
| contig00104 | 79 | 939 | blaTEM-1 | 0/0 | 100 | 100.0 | NG_050145.1 | class A broad-spectrum beta-lactamase TEM-1 | BETA-LACTAM |
| contig00072 | 5984 | 6643 | catA1 | 0/0 | 100 | 99.8 | NG_047582.1 | type A-1 chloramphenicol O-acetyltransferase | CHLORAMPHENICOL |
| contig00098 | 90 | 731 | catA2 | 0/0 | 100 | 100.0 | NG_047596.1 | type A-2 chloramphenicol O-acetyltransferase CatII | CHLORAMPHENICOL |
| contig00070 | 6 | 503 | dfrA12 | 0/0 | 100 | 100.0 | NG_047689.1 | trimethoprim-resistant dihydrofolate reductase DfrA12 | TRIMETHOPRIM |
| contig00097 | 69 | 990 | mph(A) | 1/1 | 100 | 99.7 | NG_047986.1 | Mph(A) family macrolide 2’-phosphotransferase | MACROLIDE |
| contig00087 | 219 | 875 | qnrS1 | 0/0 | 100 | 100.0 | NG_050543.1 | quinolone resistance pentapeptide repeat protein QnrS1 | QUINOLONE |
| contig00070 | 2207 | 3046 | sul1 | 0/0 | 100 | 100.0 | NG_048082.1 | sulfonamide-resistant dihydropteroate synthase Sul1 | SULFONAMIDE |
| contig00086 | 109 | 900 | sul3 | 0/0 | 100 | 100.0 | NG_048120.1 | sulfonamide-resistant dihydropteroate synthase Sul3 | SULFONAMIDE |
| contig00078 | 2385 | 3584 | tet(A) | 0/0 | 100 | 99.9 | NG_048154.1 | tetracycline efflux MFS transporter Tet(A) | TETRACYCLINE |
| contig00083 | 800 | 2005 | tet(B) | 0/0 | 100 | 100.0 | NG_048163.1 | tetracycline efflux MFS transporter Tet(B) | TETRACYCLINE |
MEGARES
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00075 | 4779 | 5639 | AAC3 | 0/0 | 100.0 | 100.0 | MEG_64 | Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 | NA |
| contig00006 | 37817 | 39010 | ACRA | 0/0 | 100.0 | 100.0 | MEG_399 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA | NA |
| contig00006 | 39033 | 42182 | ACRB | 0/0 | 100.0 | 100.0 | MEG_401 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRB | NA |
| contig00008 | 71642 | 74755 | ACRD | 0/0 | 100.0 | 100.0 | MEG_407 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ACRD | NA |
| contig00036 | 8480 | 9637 | ACRE | 0/0 | 100.0 | 99.9 | MEG_408 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRE | NA |
| contig00036 | 5364 | 8468 | ACRF | 0/0 | 100.0 | 99.9 | MEG_409 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRF | NA |
| contig00036 | 10036 | 10698 | ACRS | 0/0 | 100.0 | 100.0 | MEG_415 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:ACRS | NA |
| contig00006 | 127045 | 128202 | AMPH | 0/0 | 100.0 | 100.0 | MEG_729 | Drugs:betalactams:Penicillin_binding_protein:AMPH | NA |
| contig00070 | 901 | 1702 | ANT3-DPRIME | 0/0 | 97.9 | 99.9 | MEG_975 | Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME | NA |
| contig00013 | 54308 | 56160 | ASMA | 0/0 | 100.0 | 97.2 | MEG_1180 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA | NA |
| contig00004 | 146459 | 147280 | BACA | 0/0 | 100.0 | 98.9 | MEG_1189 | Drugs:Bacitracin:Undecaprenyl_pyrophosphate_phosphatase:BACA | NA |
| contig00013 | 31061 | 31783 | BAER | 0/0 | 100.0 | 99.5 | MEG_1192 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAER | NA |
| contig00013 | 31780 | 33183 | BAES | 0/0 | 100.0 | 99.9 | MEG_1193 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_regulator:BAES | NA |
| contig00026 | 23409 | 24599 | BCR | 0/0 | 100.0 | 99.9 | MEG_1210 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:BCR | NA |
| contig00012 | 65398 | 66531 | BLAEC | 0/0 | 100.0 | 98.5 | MEG_1282 | Drugs:betalactams:Class_C_betalactamases:BLAEC | NA |
| contig00072 | 5984 | 6648 | CATA | 0/0 | 99.1 | 100.0 | MEG_1593 | Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA | NA |
| contig00098 | 90 | 731 | CATA | 0/0 | 100.0 | 100.0 | MEG_1568 | Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA | NA |
| contig00027 | 60835 | 61533 | CPXAR | 0/0 | 100.0 | 100.0 | MEG_2122 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00027 | 61530 | 62903 | CPXAR | 0/0 | 100.0 | 100.0 | MEG_2121 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00005 | 15387 | 16019 | CRP | 0/0 | 100.0 | 99.4 | MEG_2132 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CRP | NA |
| contig00064 | 12904 | 13846 | CTX | 0/0 | 100.0 | 98.2 | MEG_2435 | Drugs:betalactams:Class_A_betalactamases:CTX | NA |
| contig00070 | 6 | 503 | DFRA | 0/0 | 100.0 | 100.0 | MEG_2551 | Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA | NA |
| contig00001 | 58458 | 59630 | EMRA | 0/0 | 100.0 | 100.0 | MEG_2722 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRA | NA |
| contig00001 | 59647 | 61185 | EMRB | 0/0 | 100.0 | 100.0 | MEG_2725 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRB | NA |
| contig00016 | 87249 | 88439 | EMRD | 0/0 | 100.0 | 100.0 | MEG_2729 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRD | NA |
| contig00009 | 121400 | 122563 | EMRK | 0/0 | 100.0 | 99.9 | MEG_2732 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRK | NA |
| contig00001 | 57801 | 58331 | EMRR | 0/0 | 100.0 | 99.8 | MEG_2734 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EMRR | NA |
| contig00009 | 119862 | 121400 | EMRY | 0/0 | 100.0 | 99.9 | MEG_2736 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:EMRY | NA |
| contig00012 | 99939 | 101582 | EPTA | 0/0 | 100.0 | 99.9 | MEG_2739 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:EPTA | NA |
| contig00009 | 123597 | 127190 | EVGS | 0/0 | 100.0 | 100.0 | MEG_2870 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_regulator:EVGS | NA |
| contig00042 | 1783 | 2511 | GADW | 0/0 | 100.0 | 100.0 | MEG_3081 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADW | NA |
| contig00042 | 592 | 1416 | GADX | 0/0 | 100.0 | 100.0 | MEG_3083 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:GADX | NA |
| contig00029 | 61368 | 61781 | HNS | 0/0 | 100.0 | 99.3 | MEG_3271 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_pumps:HNS | NA |
| contig00010 | 8068 | 8745 | KDPE | 0/0 | 100.0 | 100.0 | MEG_3448 | Drugs:Aminoglycosides:Aminoglycoside_efflux_pumps:KDPE | NA |
| contig00049 | 22975 | 23364 | MARA | 0/0 | 100.0 | 100.0 | MEG_3662 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARA | NA |
| contig00049 | 22527 | 22961 | MARR | 0/0 | 100.0 | 100.0 | MEG_3663 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:MARR | NA |
| contig00002 | 10013 | 11245 | MDFA | 0/0 | 100.0 | 100.0 | MEG_3737 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDFA | NA |
| contig00013 | 40796 | 42043 | MDTA | 0/0 | 100.0 | 98.0 | MEG_3746 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTA | NA |
| contig00013 | 37674 | 40796 | MDTB | 0/0 | 100.0 | 99.8 | MEG_3747 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTB | NA |
| contig00013 | 34596 | 37673 | MDTC | 0/0 | 100.0 | 99.9 | MEG_3749 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:MDTC | NA |
| contig00042 | 6012 | 7169 | MDTE | 0/0 | 100.0 | 100.0 | MEG_3751 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTE | NA |
| contig00042 | 2874 | 5987 | MDTF | 0/0 | 100.0 | 100.0 | MEG_3752 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTF | NA |
| contig00015 | 16670 | 17896 | MDTG | 0/0 | 100.0 | 100.0 | MEG_3753 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTG | NA |
| contig00015 | 26525 | 27733 | MDTH | 0/0 | 100.0 | 100.0 | MEG_3755 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTH | NA |
| contig00035 | 21401 | 21730 | MDTI | 0/0 | 100.0 | 100.0 | MEG_3756 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTI | NA |
| contig00035 | 21717 | 22082 | MDTJ | 0/0 | 100.0 | 99.5 | MEG_3757 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:MDTJ | NA |
| contig00023 | 43727 | 45100 | MDTK | 0/0 | 100.0 | 100.0 | MEG_3759 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MATE_efflux_pumps:MDTK | NA |
| contig00048 | 473 | 1684 | MDTM | 0/0 | 98.3 | 95.5 | MEG_3761 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:MDTM | NA |
| contig00030 | 21853 | 22884 | MDTN | 0/0 | 100.0 | 100.0 | MEG_3763 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTN | NA |
| contig00030 | 22884 | 24935 | MDTO | 0/0 | 100.0 | 100.0 | MEG_3764 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTO | NA |
| contig00030 | 24932 | 26398 | MDTP | 0/0 | 100.0 | 100.0 | MEG_3765 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:MDTP | NA |
| contig00097 | 69 | 990 | MPHA | 1/1 | 100.0 | 99.7 | MEG_4030 | Drugs:MLS:Macrolide_phosphotransferases:MPHA | NA |
| contig00008 | 50480 | 50956 | MPHB | 0/0 | 100.0 | 98.3 | MEG_4033 | Drugs:MLS:Macrolide_phosphotransferases:MPHB | NA |
| contig00002 | 92961 | 94709 | MSBA | 0/0 | 100.0 | 100.0 | MEG_4061 | Drugs:Multi-drug_resistance:Multi-drug_ABC_efflux_pumps:MSBA | NA |
| contig00010 | 60155 | 62056 | PBP2 | 0/0 | 100.0 | 100.0 | MEG_5400 | Drugs:betalactams:Penicillin_binding_protein:PBP2 | NA |
| contig00008 | 106154 | 107458 | PBP4B | 0/0 | 100.0 | 99.9 | MEG_5409 | Drugs:betalactams:Penicillin_binding_protein:PBP4B | NA |
| contig00009 | 17667 | 18635 | PMRF | 0/0 | 100.0 | 100.0 | MEG_5801 | Drugs:Cationic_antimicrobial_peptides:Lipid_A_modification:PMRF | NA |
| contig00087 | 219 | 875 | QNRS | 0/0 | 100.0 | 100.0 | MEG_6020 | Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS | NA |
| contig00003 | 19983 | 20852 | ROBA | 0/0 | 100.0 | 99.0 | MEG_6082 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_RND_efflux_pumps:ROBA | NA |
| contig00030 | 48015 | 48338 | SOXS | 0/0 | 100.0 | 100.0 | MEG_6551 | Multi-compound:Drug_and_biocide_and_metal_resistance:Drug_and_biocide_and_metal_resistance_regulator:SOXS | NA |
| contig00070 | 2206 | 3173 | SULI | 0/0 | 100.0 | 100.0 | MEG_6615 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI | NA |
| contig00086 | 109 | 900 | SULIII | 0/0 | 100.0 | 100.0 | MEG_6639 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULIII | NA |
| contig00078 | 2385 | 3659 | TETA | 0/0 | 100.0 | 99.9 | MEG_7024 | Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA | NA |
| contig00083 | 800 | 2005 | TETB | 0/0 | 100.0 | 100.0 | MEG_7052 | Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETB | NA |
| contig00083 | 2799 | 3215 | TETD | 0/0 | 100.0 | 100.0 | MEG_7070 | Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETD | NA |
| contig00040 | 42513 | 44156 | YOGI | 0/0 | 100.0 | 100.0 | MEG_7842 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_ABC_efflux_pumps:YOGI | NA |
ID051II
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00402 | 1693 | 2553 | aac(3)-IIa_1 | 0/0 | 100.0 | 99.8 | X51534 | aac(3)-IIa | Gentamicin, Tobramycin |
| contig00429 | 1540 | 2139 | aac(6’)-Ib-cr_1 | 0/0 | 100.0 | 100.0 | DQ303918 | aac(6’)-Ib-cr | Ciprofloxacin |
| contig00177 | 2210 | 2998 | aadA5_1 | 0/0 | 100.0 | 100.0 | AF137361 | aadA5 | Streptomycin |
| contig00524 | 134 | 949 | aph(3’)-Ia_1 | 0/0 | 100.0 | 100.0 | V00359 | aph(3’)-Ia | |
| contig00148 | 256 | 1092 | aph(6)-Id_1 | 0/0 | 100.0 | 100.0 | M28829 | aph(6)-Id | Streptomycin |
| contig00179 | 5876 | 6751 | blaCTX-M-15_1 | 0/0 | 100.0 | 100.0 | AY044436 | blaCTX-M-15 | Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin |
| contig00429 | 579 | 1409 | blaOXA-1_1 | 0/0 | 100.0 | 100.0 | HQ170510 | blaOXA-1 | Amoxicillin, Amoxicillin+Clavulanic_acid, Ampicillin, Ampicillin+Clavulanic_acid, Cefepime, Piperacillin, Piperacillin+Tazobactam |
| contig00487 | 89 | 730 | catA2_1 | 0/0 | 100.0 | 96.1 | X53796 | catA2 | Chloramphenicol |
| contig00607 | 73 | 555 | dfrA14_5 | 0/0 | 100.0 | 99.8 | DQ388123 | dfrA14 | Trimethoprim |
| contig00177 | 1606 | 2079 | dfrA17_1 | 0/0 | 100.0 | 100.0 | FJ460238 | dfrA17 | Trimethoprim |
| contig00280 | 4987 | 5406 | fosA_6 | 0/0 | 100.0 | 93.6 | ACZD01000244 | fosA | Fosfomycin |
| contig00511 | 68 | 989 | mph(A)_2 | 1/1 | 100.0 | 99.7 | U36578 | mph(A) | Erythromycin, Azithromycin, Spiramycin, Telithromycin |
| contig00004 | 5865 | 7040 | oqxA_1 | 0/0 | 100.0 | 93.9 | EU370913 | oqxA | Nalidixic_acid, Ciprofloxacin |
| contig00004 | 2689 | 5841 | oqxB_1 | 0/0 | 100.0 | 95.5 | EU370913 | oqxB | Nalidixic_acid, Ciprofloxacin |
| contig00125 | 1330 | 1986 | qnrS1_1 | 0/0 | 100.0 | 100.0 | AB187515 | qnrS1 | Ciprofloxacin |
| contig00177 | 3518 | 4384 | sul1_5 | 0/0 | 100.0 | 99.9 | EU780013 | sul1 | Sulfamethoxazole |
| contig00443 | 569 | 1384 | sul2_2 | 0/0 | 100.0 | 100.0 | AY034138 | sul2 | Sulfamethoxazole |
| contig00315 | 2630 | 3876 | tet(A)_6 | 0/0 | 97.8 | 99.9 | AF534183 | tet(A) | Doxycycline, Tetracycline |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00402 | 1693 | 2553 | AAC(3)-IIe | 0/0 | 100.0 | 99.5 | EU022315.1:0-861 | AAC(3)-IIe is a plasmid-encoded aminoglycoside acetyltransferase in E. coli | aminoglycoside |
| contig00429 | 1540 | 2139 | AAC(6’)-Ib-cr | 0/0 | 100.0 | 100.0 | DQ303918:0-600 | AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously | aminoglycoside, fluoroquinolone |
| contig00177 | 2210 | 2998 | aadA5 | 0/0 | 100.0 | 100.0 | AF137361:63-852 | aadA5 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids transposons and integrons in E. coli K. pneumoniae Kluyvera georgiana P. aeruginosa and E. cloacae | aminoglycoside |
| contig00524 | 136 | 949 | APH(3’)-Ia | 0/0 | 99.8 | 99.4 | BX664015.1:103833-103017 | APH(3’)-Ia is a transposon-encoded aminoglycoside phosphotransferase in E. coli and S. enterica. It is identical at the protein sequence to APH(3’)-Ic an aminoglycoside phosphotransferase encoded by plasmids transposons and genomic islands in K. pneumoniae A. baumannii S. marcescens Corynebacterium spp. Photobacterium spp. and Citrobacter spp. | aminoglycoside |
| contig00148 | 256 | 1092 | APH(6)-Id | 0/0 | 100.0 | 99.9 | AF024602:3155-3992 | APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum | aminoglycoside |
| contig00487 | 89 | 730 | catII_from_Escherichia_coli_K-12 | 0/0 | 100.0 | 96.1 | X53796.1:186-828 | catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. | phenicol |
| contig00179 | 5876 | 6751 | CTX-M-15 | 0/0 | 100.0 | 100.0 | AY044436:1435-2311 | CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family | cephalosporin |
| contig00607 | 73 | 555 | dfrA14 | 0/0 | 100.0 | 100.0 | EU780012:2162-2645 | dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli | diaminopyrimidine |
| contig00177 | 1606 | 2079 | dfrA17 | 0/0 | 100.0 | 100.0 | DQ838665:0-474 | dfrA17 is an integron-encoded dihydrofolate reductase found in Escherichia coli | diaminopyrimidine |
| contig00280 | 4987 | 5406 | FosA6 | 0/0 | 100.0 | 93.3 | KU254579.1:59421-59841 | fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. | fosfomycin |
| contig00043 | 3169 | 4362 | Klebsiella_pneumoniae_acrA | 2/3 | 99.8 | 95.0 | AJ318073.1:793-1990 | AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00249 | 2152 | 2481 | Klebsiella_pneumoniae_KpnF | 0/0 | 100.0 | 93.3 | AP006725.1:2484238-2484568 | KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. | aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline |
| contig00188 | 4037 | 5209 | Klebsiella_pneumoniae_KpnG | 0/0 | 100.0 | 94.5 | ACWO01000051.1:22092-23265 | KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin | aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide |
| contig00069 | 1914 | 3038 | Klebsiella_pneumoniae_OmpK37 | 0/0 | 100.0 | 92.4 | AJ011502.1:300-1425 | Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem |
| contig00511 | 68 | 973 | mphA | 0/0 | 100.0 | 100.0 | D16251.1:2531-1625 | The mphA gene encodes for resistance enzyme MPH(2’)-I which preferentially inactivate 14-membered macrolides (e.g.erythromycin telithromycin roxithromycin) over 16-membered macrolides (e.g.tylosin spiramycin). It phosphorylates macrolides at 2’-OH hydroxyl of desosamine sugar of macrolides in a GTP-dependent manner. | macrolide |
| contig00004 | 5865 | 7040 | oqxA | 0/0 | 100.0 | 93.9 | EU370913.1:46651-47827 | RND efflux pump conferring resistance to fluoroquinolone | diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline |
| contig00004 | 2689 | 5841 | oqxB | 0/0 | 100.0 | 95.5 | EU370913.1:47850-51003 | RND efflux pump conferring resistance to fluoroquinolone | diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline |
| contig00429 | 579 | 1409 | OXA-1 | 0/0 | 100.0 | 100.0 | JN420336.1:2230-1399 | OXA-1 is a beta-lactamase found in E. coli | cephalosporin, penam |
| contig00125 | 1330 | 1986 | QnrS1 | 0/0 | 100.0 | 100.0 | DQ485529.1:0-657 | QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri | fluoroquinolone |
| contig00177 | 3545 | 4384 | sul1 | 0/0 | 100.0 | 100.0 | JF969163:1053-1893 | Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. | sulfonamide |
| contig00443 | 569 | 1384 | sul2 | 0/0 | 100.0 | 100.0 | AY055428.1:21084-20268 | Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. | sulfonamide |
| contig00315 | 2630 | 3876 | tet(A) | 0/0 | 97.8 | 99.9 | AF534183.1:2970-4245 | TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. | tetracycline |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00402 | 1693 | 2553 | (AGly)aac3-IIa | 0/0 | 100 | 99.8 | X51534:91-951 | (AGly)aac3-IIa | NA |
| contig00177 | 2210 | 2998 | (AGly)aadA5 | 0/0 | 100 | 100.0 | AF137361:64-852 | (AGly)aadA5 | NA |
| contig00524 | 134 | 949 | (AGly)aph3-Ia | 0/0 | 100 | 99.9 | HQ840942:23569-24384 | (AGly)aph3-Ia | NA |
| contig00148 | 256 | 1092 | (AGly)strB | 0/0 | 100 | 100.0 | FJ474091:264-1100 | (AGly)strB | NA |
| contig00137 | 5314 | 6474 | (Bla)ampH | 0/0 | 100 | 96.0 | CP003785:4208384-4209544 | (Bla)ampH | NA |
| contig00179 | 5876 | 6751 | (Bla)blaCTX-M-15 | 0/0 | 100 | 100.0 | JQ686199:261-1136 | (Bla)blaCTX-M-15 | NA |
| contig00429 | 579 | 1409 | (Bla)blaOXA-1 | 0/0 | 100 | 100.0 | JQ682867:1-831 | (Bla)blaOXA-1 | NA |
| contig00280 | 4987 | 5406 | (Fcyn)FosA6 | 0/0 | 100 | 93.3 | KU254579:59422-59841 | (Fcyn)FosA6 | NA |
| contig00004 | 5865 | 7040 | (Flq)OqxA | 0/0 | 100 | 93.9 | EU370913:46652-47827 | (Flq)OqxA | NA |
| contig00004 | 2689 | 5841 | (Flq)OqxBgb | 0/0 | 100 | 95.5 | EU370913:47851-51003 | (Flq)OqxBgb | NA |
| contig00125 | 1330 | 1986 | (Flq)qnr-S1 | 0/0 | 100 | 100.0 | AB187515:9737-10393 | (Flq)qnr-S1 | NA |
| contig00511 | 68 | 973 | (MLS)mph(A) | 0/0 | 100 | 100.0 | DQ445270:1626-2531 | (MLS)mph(A) | NA |
| contig00487 | 89 | 730 | (Phe)catA2 | 0/0 | 100 | 96.1 | X53796:187-903 | (Phe)catA2 | NA |
| contig00177 | 3545 | 4384 | (Sul)sul1 | 0/0 | 100 | 100.0 | AF071413:6700-7539 | (Sul)sul1 | NA |
| contig00443 | 569 | 1384 | (Sul)sul2 | 0/0 | 100 | 100.0 | EU360945:1617-2432 | (Sul)sul2 | NA |
| contig00315 | 2602 | 3876 | (Tet)tetA | 0/0 | 100 | 99.9 | JX424423:94438-95712 | (Tet)tetA | NA |
| contig00315 | 3907 | 4557 | (Tet)tetR | 0/0 | 100 | 100.0 | HF545434:53576-54226 | (Tet)tetR | NA |
| contig00607 | 73 | 546 | (Tmt)dfrA14 | 0/0 | 100 | 99.8 | GU726917:72-545 | (Tmt)dfrA14 | NA |
| contig00177 | 1606 | 2079 | (Tmt)dfrA17 | 0/0 | 100 | 100.0 | AB126604:98-571 | (Tmt)dfrA17 | NA |
NCBI
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00402 | 1693 | 2553 | aac(3)-IIe | 0/0 | 100 | 99.8 | NG_047244.1 | aminoglycoside N-acetyltransferase AAC(3)-IIe | GENTAMICIN |
| contig00429 | 1540 | 2094 | aac(6’)-Ib-D181Y | 0/0 | 100 | 99.8 | NG_067946.1 | AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase | AMIKACIN, KANAMYCIN, TOBRAMYCIN |
| contig00177 | 2210 | 2998 | aadA5 | 0/0 | 100 | 100.0 | NG_047357.1 | ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA5 | STREPTOMYCIN |
| contig00524 | 134 | 949 | aph(3’)-Ia | 0/0 | 100 | 100.0 | NG_047430.1 | aminoglycoside O-phosphotransferase APH(3’)-Ia | KANAMYCIN |
| contig00148 | 256 | 1092 | aph(6)-Id | 0/0 | 100 | 100.0 | NG_047464.1 | aminoglycoside O-phosphotransferase APH(6)-Id | STREPTOMYCIN |
| contig00179 | 5876 | 6751 | blaCTX-M-15 | 0/0 | 100 | 100.0 | NG_048935.1 | class A extended-spectrum beta-lactamase CTX-M-15 | CEPHALOSPORIN |
| contig00429 | 579 | 1409 | blaOXA-1 | 0/0 | 100 | 100.0 | NG_049392.1 | oxacillin-hydrolyzing class D beta-lactamase OXA-1 | CEPHALOSPORIN |
| contig00487 | 89 | 730 | catA2 | 0/0 | 100 | 100.0 | NG_047596.1 | type A-2 chloramphenicol O-acetyltransferase CatII | CHLORAMPHENICOL |
| contig00607 | 73 | 546 | dfrA14 | 0/0 | 100 | 100.0 | NG_047696.1 | trimethoprim-resistant dihydrofolate reductase DfrA14 | TRIMETHOPRIM |
| contig00177 | 1606 | 2079 | dfrA17 | 0/0 | 100 | 99.8 | NG_047710.1 | trimethoprim-resistant dihydrofolate reductase DfrA17 | TRIMETHOPRIM |
| contig00280 | 4987 | 5406 | fosA_gen | 0/0 | 100 | 93.6 | NG_047881.1 | FosA family fosfomycin resistance glutathione transferase | FOSFOMYCIN |
| contig00511 | 68 | 989 | mph(A) | 1/1 | 100 | 99.7 | NG_047986.1 | Mph(A) family macrolide 2’-phosphotransferase | MACROLIDE |
| contig00004 | 5865 | 7040 | oqxA10 | 0/0 | 100 | 94.1 | NG_050418.1 | multidrug efflux RND transporter periplasmic adaptor subunit OqxA10 | PHENICOL, QUINOLONE |
| contig00004 | 2689 | 5841 | oqxB11 | 0/0 | 100 | 96.1 | NG_050429.1 | multidrug efflux RND transporter permease subunit OqxB11 | PHENICOL, QUINOLONE |
| contig00125 | 1330 | 1986 | qnrS1 | 0/0 | 100 | 100.0 | NG_050543.1 | quinolone resistance pentapeptide repeat protein QnrS1 | QUINOLONE |
| contig00177 | 3545 | 4384 | sul1 | 0/0 | 100 | 100.0 | NG_048082.1 | sulfonamide-resistant dihydropteroate synthase Sul1 | SULFONAMIDE |
| contig00443 | 569 | 1384 | sul2 | 0/0 | 100 | 100.0 | NG_051852.1 | sulfonamide-resistant dihydropteroate synthase Sul2 | SULFONAMIDE |
| contig00315 | 2602 | 3801 | tet(A) | 0/0 | 100 | 99.9 | NG_048154.1 | tetracycline efflux MFS transporter Tet(A) | TETRACYCLINE |
MEGARES
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00402 | 1693 | 2553 | AAC3 | 0/0 | 100.0 | 99.8 | MEG_44 | Drugs:Aminoglycosides:Aminoglycoside_N-acetyltransferases:AAC3 | NA |
| contig00043 | 3169 | 4362 | ACRA | 2/3 | 99.8 | 95.0 | MEG_400 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA | NA |
| contig00137 | 5314 | 6474 | AMPH | 0/0 | 100.0 | 96.0 | MEG_730 | Drugs:betalactams:Penicillin_binding_protein:AMPH | NA |
| contig00177 | 2210 | 2998 | ANT3-DPRIME | 0/0 | 100.0 | 100.0 | MEG_928 | Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME | NA |
| contig00524 | 134 | 949 | APH3-PRIME | 0/0 | 100.0 | 100.0 | MEG_1079 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-PRIME | NA |
| contig00148 | 256 | 1092 | APH6 | 0/0 | 100.0 | 100.0 | MEG_1086 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 | NA |
| contig00017 | 1756 | 3579 | ASMA | 0/0 | 100.0 | 93.4 | MEG_1179 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA | NA |
| contig00487 | 89 | 730 | CATA | 0/0 | 100.0 | 100.0 | MEG_1568 | Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA | NA |
| contig00008 | 28636 | 29334 | CPXAR | 0/0 | 100.0 | 97.0 | MEG_2116 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00008 | 29331 | 30704 | CPXAR | 0/0 | 100.0 | 96.1 | MEG_2115 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00112 | 13536 | 14424 | CTX | 0/0 | 100.0 | 95.4 | MEG_2430 | Drugs:betalactams:Class_A_betalactamases:CTX | NA |
| contig00177 | 1606 | 2079 | DFRA | 0/0 | 100.0 | 100.0 | MEG_2547 | Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA | NA |
| contig00607 | 73 | 546 | DFRA | 0/0 | 100.0 | 100.0 | MEG_2517 | Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA | NA |
| contig00280 | 4987 | 5406 | FOSA | 0/0 | 100.0 | 93.6 | MEG_2991 | Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA | NA |
| contig00005 | 3915 | 5146 | KDEA | 0/0 | 99.9 | 94.2 | MEG_3447 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KDEA | NA |
| contig00188 | 4037 | 5209 | KPN | 0/0 | 100.0 | 94.5 | MEG_3512 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KPN | NA |
| contig00249 | 2152 | 2481 | KPNF | 0/0 | 100.0 | 93.3 | MEG_3515 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNF | NA |
| contig00060 | 19835 | 20938 | KPNO | 4/18 | 99.5 | 94.8 | MEG_3516 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNO | NA |
| contig00511 | 68 | 989 | MPHA | 1/1 | 100.0 | 99.7 | MEG_4030 | Drugs:MLS:Macrolide_phosphotransferases:MPHA | NA |
| contig00069 | 1914 | 3038 | OMP37 | 0/0 | 100.0 | 92.4 | MEG_4283 | Drugs:betalactams:Mutant_porin_proteins:OMP37 | NA |
| contig00004 | 5865 | 7040 | OQXA | 0/0 | 100.0 | 94.1 | MEG_4326 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXA | NA |
| contig00004 | 2689 | 5841 | OQXB | 0/0 | 100.0 | 96.1 | MEG_4364 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXB | NA |
| contig00429 | 579 | 1409 | OXA | 0/0 | 100.0 | 100.0 | MEG_4980 | Drugs:betalactams:Class_D_betalactamases:OXA | NA |
| contig00022 | 29869 | 31335 | PHOR | 0/0 | 100.0 | 93.1 | MEG_5786 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_regulator:PHOR | NA |
| contig00125 | 1330 | 1986 | QNRS | 0/0 | 100.0 | 100.0 | MEG_6020 | Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS | NA |
| contig00177 | 3544 | 4511 | SULI | 0/0 | 100.0 | 100.0 | MEG_6615 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI | NA |
| contig00443 | 569 | 1384 | SULII | 0/0 | 100.0 | 100.0 | MEG_6617 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII | NA |
| contig00315 | 2602 | 3876 | TETA | 0/0 | 100.0 | 99.9 | MEG_7024 | Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA | NA |
ID064
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00142 | 9384 | 9983 | aac(6’)-Ib-cr_1 | 0/0 | 100.0 | 100.0 | DQ303918 | aac(6’)-Ib-cr | Ciprofloxacin |
| contig00142 | 7203 | 8048 | aadA16_1 | 0/0 | 100.0 | 99.6 | EU675686 | aadA16 | Streptomycin |
| contig00067 | 9851 | 10654 | aph(3’’)-Ib_5 | 0/0 | 100.0 | 99.9 | AF321551 | aph(3’’)-Ib | Streptomycin |
| contig00067 | 9015 | 9851 | aph(6)-Id_1 | 0/0 | 100.0 | 99.9 | M28829 | aph(6)-Id | Streptomycin |
| contig00142 | 8835 | 9327 | ARR-3_4 | 0/0 | 90.8 | 99.2 | FM207631 | ARR-3 | |
| contig00067 | 3737 | 4612 | blaCTX-M-15_1 | 0/0 | 100.0 | 100.0 | AY044436 | blaCTX-M-15 | Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin |
| contig00233 | 4019 | 4879 | blaSHV-37_1 | 0/0 | 100.0 | 100.0 | AF467948 | blaSHV-37 | |
| contig00067 | 7434 | 8294 | blaTEM-1B_1 | 0/0 | 100.0 | 100.0 | AY458016 | blaTEM-1B | Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin |
| contig00142 | 8229 | 8702 | dfrA27_1 | 0/0 | 100.0 | 100.0 | FJ459817 | dfrA27 | Trimethoprim |
| contig00146 | 112 | 531 | fosA6_1 | 0/0 | 97.0 | 98.3 | KU254579 | fosA6 | Fosfomycin |
| contig00105 | 6236 | 7411 | oqxA_1 | 0/0 | 100.0 | 99.3 | EU370913 | oqxA | Nalidixic_acid, Ciprofloxacin |
| contig00105 | 3060 | 6212 | oqxB_1 | 0/0 | 100.0 | 98.8 | EU370913 | oqxB | Nalidixic_acid, Ciprofloxacin |
| contig00398 | 188 | 844 | qnrS1_1 | 0/0 | 100.0 | 100.0 | AB187515 | qnrS1 | Ciprofloxacin |
| contig00142 | 5906 | 6772 | sul1_5 | 0/0 | 100.0 | 99.9 | EU780013 | sul1 | Sulfamethoxazole |
| contig00067 | 10715 | 11530 | sul2_2 | 0/0 | 100.0 | 100.0 | AY034138 | sul2 | Sulfamethoxazole |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00142 | 9384 | 9983 | AAC(6’)-Ib-cr | 0/0 | 100.0 | 100.0 | DQ303918:0-600 | AAC(6’)-Ib-cr is an aminoglycoside acetyltransferase encoded by plasmids transposons integrons in Enterobacteriaceae. The aac(6’)-Ib-cr variant gene can induce resistance against aminoglycoside and fluoroquinolone simultaneously | aminoglycoside, fluoroquinolone |
| contig00142 | 7203 | 8048 | aadA16 | 0/0 | 100.0 | 99.6 | EU675686:3196-4042 | aadA16 is an aminoglycoside nucleotidyltransferase gene encoded by plasmids and integrons in E. coli V. cholerae and K. pneumoniae | aminoglycoside |
| contig00067 | 9851 | 10654 | APH(3’’)-Ib | 0/0 | 100.0 | 99.6 | AF313472:15593-16397 | APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. | aminoglycoside |
| contig00067 | 9015 | 9851 | APH(6)-Id | 0/0 | 100.0 | 99.8 | AF024602:3155-3992 | APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum | aminoglycoside |
| contig00142 | 8835 | 9287 | arr-3 | 0/0 | 100.0 | 100.0 | EU675686:1956-2409 | arr-3 is a plasmid-encoded ribosyltransferase found in Vibrio fluvialis | rifamycin |
| contig00067 | 3737 | 4612 | CTX-M-15 | 0/0 | 100.0 | 100.0 | AY044436:1435-2311 | CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family | cephalosporin |
| contig00142 | 8229 | 8702 | dfrA27 | 0/0 | 100.0 | 100.0 | KP076293.1:2347-2821 | A dihydrofolate reductase and trimethoprim resistance gene from non-O1 non-O139 Vibrio cholerae | diaminopyrimidine |
| contig00146 | 112 | 531 | FosA6 | 0/0 | 100.0 | 98.3 | KU254579.1:59421-59841 | fosA6 is a plasmid-encoded enzyme that confers resistance to fosfomycin in Escherichia coli by breaking the epoxide ring of the molecule. | fosfomycin |
| contig00046 | 3106 | 4299 | Klebsiella_pneumoniae_acrA | 2/3 | 99.8 | 97.9 | AJ318073.1:793-1990 | AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00114 | 9785 | 10147 | Klebsiella_pneumoniae_KpnE | 0/0 | 100.0 | 99.5 | AP006725.1:2483889-2484252 | KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan | aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline |
| contig00114 | 9469 | 9798 | Klebsiella_pneumoniae_KpnF | 0/0 | 100.0 | 98.8 | AP006725.1:2484238-2484568 | KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. | aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline |
| contig00169 | 3969 | 5141 | Klebsiella_pneumoniae_KpnG | 0/0 | 100.0 | 99.4 | ACWO01000051.1:22092-23265 | KpnG consists of ~390 residues and resembles EmrA of E. coli. Disruption of the pump components KpnG-KpnH signficantly decrease resistance to azithromycin ceftazidime ciprofloxacin ertapenem erythromycin gentamicin imipenem ticarcillin norfloxacin polymyxin-B piperacillin spectinomycin tobramycin and streptomycin | aminoglycoside, carbapenem, cephalosporin, fluoroquinolone, macrolide, penam, penem, peptide |
| contig00074 | 1069 | 2193 | Klebsiella_pneumoniae_OmpK37 | 0/0 | 100.0 | 99.4 | AJ011502.1:300-1425 | Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem |
| contig00105 | 6236 | 7411 | oqxA | 0/0 | 100.0 | 99.3 | EU370913.1:46651-47827 | RND efflux pump conferring resistance to fluoroquinolone | diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline |
| contig00105 | 3060 | 6212 | oqxB | 0/0 | 100.0 | 98.8 | EU370913.1:47850-51003 | RND efflux pump conferring resistance to fluoroquinolone | diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline |
| contig00398 | 188 | 844 | QnrS1 | 0/0 | 100.0 | 100.0 | DQ485529.1:0-657 | QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri | fluoroquinolone |
| contig00233 | 4019 | 4879 | SHV-37 | 0/0 | 100.0 | 100.0 | AF467948:0-861 | SHV-37 is a beta-lactamase found in Klebsiella pneumoniae. | carbapenem, cephalosporin, penam |
| contig00142 | 5906 | 6745 | sul1 | 0/0 | 100.0 | 100.0 | JF969163:1053-1893 | Sul1 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria. It is linked to other resistance genes of class 1 integrons. | sulfonamide |
| contig00067 | 10715 | 11530 | sul2 | 0/0 | 100.0 | 100.0 | AY055428.1:21084-20268 | Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. | sulfonamide |
| contig00067 | 7434 | 8294 | TEM-1 | 0/0 | 100.0 | 99.9 | AL513383:161910-162771 | TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. | cephalosporin, monobactam, penam, penem |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00142 | 7203 | 8048 | (AGly)aadA16 | 0/0 | 100 | 99.6 | EU675686:3197-4042 | (AGly)aadA16 | NA |
| contig00067 | 9851 | 10654 | (AGly)strA | 0/0 | 100 | 99.8 | AB366441:22458-23261 | (AGly)strA | NA |
| contig00067 | 9015 | 9851 | (AGly)strB | 0/0 | 100 | 99.9 | FJ474091:264-1100 | (AGly)strB | NA |
| contig00072 | 11437 | 12597 | (Bla)ampH | 0/0 | 100 | 99.1 | CP003785:4208384-4209544 | (Bla)ampH | NA |
| contig00067 | 3737 | 4612 | (Bla)blaCTX-M-15 | 0/0 | 100 | 100.0 | JQ686199:261-1136 | (Bla)blaCTX-M-15 | NA |
| contig00233 | 4019 | 4879 | (Bla)blaSHV-37 | 0/0 | 100 | 100.0 | AF467948:1-861 | (Bla)blaSHV-37 | NA |
| contig00067 | 7434 | 8294 | (Bla)blaTEM-105 | 0/0 | 100 | 99.9 | AF516720:215-1075 | (Bla)blaTEM-105 | NA |
| contig00146 | 112 | 531 | (Fcyn)FosA6 | 0/0 | 100 | 98.3 | KU254579:59422-59841 | (Fcyn)FosA6 | NA |
| contig00105 | 6236 | 7411 | (Flq)OqxA | 0/0 | 100 | 99.3 | EU370913:46652-47827 | (Flq)OqxA | NA |
| contig00105 | 3060 | 6212 | (Flq)OqxBgb | 0/0 | 100 | 98.8 | EU370913:47851-51003 | (Flq)OqxBgb | NA |
| contig00398 | 188 | 844 | (Flq)qnr-S1 | 0/0 | 100 | 100.0 | AB187515:9737-10393 | (Flq)qnr-S1 | NA |
| contig00142 | 8835 | 9287 | (Rif)arr3 | 0/0 | 100 | 100.0 | JF806499:1353-1805 | (Rif)arr3 | NA |
| contig00142 | 5906 | 6745 | (Sul)sul1 | 0/0 | 100 | 100.0 | AF071413:6700-7539 | (Sul)sul1 | NA |
| contig00067 | 10715 | 11530 | (Sul)sul2 | 0/0 | 100 | 100.0 | EU360945:1617-2432 | (Sul)sul2 | NA |
| contig00142 | 8229 | 8702 | (Tmt)dfrA27 | 0/0 | 100 | 100.0 | EU675686:2543-3016 | (Tmt)dfrA27 | NA |
NCBI
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00142 | 9384 | 9938 | aac(6’)-Ib-D181Y | 0/0 | 100 | 99.8 | NG_067946.1 | AAC(6’)-Ib family aminoglycoside 6’-N-acetyltransferase | AMIKACIN, KANAMYCIN, TOBRAMYCIN |
| contig00142 | 7203 | 8048 | aadA16 | 0/0 | 100 | 100.0 | NG_047339.1 | ANT(3’’)-Ia family aminoglycoside nucleotidyltransferase AadA16 | STREPTOMYCIN |
| contig00067 | 9851 | 10678 | aph(3’’)-Ib | 0/0 | 100 | 99.9 | NG_056002.2 | aminoglycoside O-phosphotransferase APH(3’’)-Ib | STREPTOMYCIN |
| contig00067 | 9015 | 9851 | aph(6)-Id | 0/0 | 100 | 100.0 | NG_047466.1 | aminoglycoside O-phosphotransferase APH(6)-Id | STREPTOMYCIN |
| contig00142 | 8835 | 9287 | arr-3 | 0/0 | 100 | 100.0 | NG_048581.1 | NAD(+)–rifampin ADP-ribosyltransferase Arr-3 | RIFAMYCIN |
| contig00067 | 3737 | 4612 | blaCTX-M-15 | 0/0 | 100 | 100.0 | NG_048935.1 | class A extended-spectrum beta-lactamase CTX-M-15 | CEPHALOSPORIN |
| contig00233 | 4019 | 4879 | blaSHV-37 | 0/0 | 100 | 100.0 | NG_050076.1 | class A beta-lactamase SHV-37 | BETA-LACTAM |
| contig00067 | 7434 | 8294 | blaTEM-1 | 0/0 | 100 | 100.0 | NG_050145.1 | class A broad-spectrum beta-lactamase TEM-1 | BETA-LACTAM |
| contig00142 | 8229 | 8702 | dfrA27 | 0/0 | 100 | 100.0 | NG_047723.1 | trimethoprim-resistant dihydrofolate reductase DfrA27 | TRIMETHOPRIM |
| contig00146 | 112 | 531 | fosA6 | 0/0 | 100 | 98.3 | NG_051497.1 | fosfomycin resistance glutathione transferase FosA6 | FOSFOMYCIN |
| contig00105 | 6236 | 7411 | oqxA9 | 0/0 | 100 | 99.7 | NG_050427.1 | multidrug efflux RND transporter periplasmic adaptor subunit OqxA9 | PHENICOL, QUINOLONE |
| contig00105 | 3060 | 6212 | oqxB20 | 0/0 | 100 | 99.6 | NG_050439.1 | multidrug efflux RND transporter permease subunit OqxB20 | PHENICOL, QUINOLONE |
| contig00398 | 188 | 844 | qnrS1 | 0/0 | 100 | 100.0 | NG_050543.1 | quinolone resistance pentapeptide repeat protein QnrS1 | QUINOLONE |
| contig00142 | 5906 | 6745 | sul1 | 0/0 | 100 | 100.0 | NG_048082.1 | sulfonamide-resistant dihydropteroate synthase Sul1 | SULFONAMIDE |
| contig00067 | 10715 | 11530 | sul2 | 0/0 | 100 | 100.0 | NG_051852.1 | sulfonamide-resistant dihydropteroate synthase Sul2 | SULFONAMIDE |
MEGARES
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00046 | 3106 | 4299 | ACRA | 2/3 | 99.8 | 97.9 | MEG_400 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA | NA |
| contig00072 | 11437 | 12597 | AMPH | 0/0 | 100.0 | 99.1 | MEG_730 | Drugs:betalactams:Penicillin_binding_protein:AMPH | NA |
| contig00142 | 7203 | 8048 | ANT3-DPRIME | 0/0 | 100.0 | 100.0 | MEG_763 | Drugs:Aminoglycosides:Aminoglycoside_O-nucleotidyltransferases:ANT3-DPRIME | NA |
| contig00067 | 9851 | 10678 | APH3-DPRIME | 0/0 | 100.0 | 99.9 | MEG_1019 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME | NA |
| contig00067 | 9015 | 9851 | APH6 | 0/0 | 100.0 | 100.0 | MEG_1084 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 | NA |
| contig00142 | 8835 | 9327 | ARR | 0/0 | 90.8 | 99.2 | MEG_1135 | Drugs:Rifampin:Rifampin_ADP-ribosyltransferase_Arr:ARR | NA |
| contig00015 | 45634 | 47457 | ASMA | 0/0 | 100.0 | 99.5 | MEG_1179 | Drugs:Multi-drug_resistance:Multi-drug_RND_efflux_regulator:ASMA | NA |
| contig00006 | 10341 | 11039 | CPXAR | 0/0 | 100.0 | 99.6 | MEG_2116 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00006 | 11036 | 12409 | CPXAR | 0/0 | 100.0 | 99.2 | MEG_2115 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00142 | 8229 | 8702 | DFRA | 0/0 | 100.0 | 100.0 | MEG_2554 | Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA | NA |
| contig00146 | 112 | 531 | FOSA | 0/0 | 100.0 | 98.3 | MEG_2987 | Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA | NA |
| contig00028 | 17987 | 19219 | KDEA | 0/0 | 100.0 | 99.7 | MEG_3447 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KDEA | NA |
| contig00169 | 3969 | 5141 | KPN | 0/0 | 100.0 | 99.4 | MEG_3512 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_MFS_efflux_pumps:KPN | NA |
| contig00114 | 9785 | 10147 | KPNE | 0/0 | 100.0 | 99.5 | MEG_3514 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNE | NA |
| contig00114 | 9469 | 9798 | KPNF | 0/0 | 100.0 | 98.8 | MEG_3515 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNF | NA |
| contig00065 | 19738 | 20838 | KPNO | 2/9 | 99.7 | 95.7 | MEG_3516 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNO | NA |
| contig00074 | 1069 | 2193 | OMP37 | 0/0 | 100.0 | 99.4 | MEG_4283 | Drugs:betalactams:Mutant_porin_proteins:OMP37 | NA |
| contig00105 | 6236 | 7411 | OQXA | 0/0 | 100.0 | 99.7 | MEG_4331 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXA | NA |
| contig00105 | 3060 | 6212 | OQXB | 0/0 | 100.0 | 99.6 | MEG_4355 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXB | NA |
| contig00023 | 27562 | 29028 | PHOR | 0/0 | 100.0 | 99.8 | MEG_5786 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_regulator:PHOR | NA |
| contig00398 | 188 | 844 | QNRS | 0/0 | 100.0 | 100.0 | MEG_6020 | Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS | NA |
| contig00233 | 3973 | 4976 | SHV | 0/0 | 99.7 | 98.5 | MEG_6428 | Drugs:betalactams:Class_A_betalactamases:SHV | NA |
| contig00142 | 5779 | 6746 | SULI | 0/0 | 100.0 | 100.0 | MEG_6615 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULI | NA |
| contig00067 | 10715 | 11530 | SULII | 0/0 | 100.0 | 100.0 | MEG_6617 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII | NA |
| contig00067 | 7067 | 8312 | TEM | 0/0 | 98.3 | 99.4 | MEG_6875 | Drugs:betalactams:Class_A_betalactamases:TEM | NA |
ID100
Resfinder
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00021 | 23104 | 23907 | aph(3’’)-Ib_5 | 0/0 | 100.0 | 100.0 | AF321551 | aph(3’’)-Ib | Streptomycin |
| contig00021 | 22268 | 23104 | aph(6)-Id_1 | 0/0 | 100.0 | 100.0 | M28829 | aph(6)-Id | Streptomycin |
| contig00021 | 16990 | 17865 | blaCTX-M-15_1 | 0/0 | 100.0 | 100.0 | AY044436 | blaCTX-M-15 | Amoxicillin, Ampicillin, Aztreonam, Cefepime, Cefotaxime, Ceftazidime, Ceftriaxone, Piperacillin, Ticarcillin |
| contig00021 | 20687 | 21547 | blaTEM-1B_1 | 0/0 | 100.0 | 100.0 | AY458016 | blaTEM-1B | Amoxicillin, Ampicillin, Cephalothin, Piperacillin, Ticarcillin |
| contig00691 | 399 | 1040 | catA2_1 | 0/0 | 100.0 | 96.1 | X53796 | catA2 | Chloramphenicol |
| contig00668 | 183 | 665 | dfrA14_5 | 0/0 | 100.0 | 99.6 | DQ388123 | dfrA14 | Trimethoprim |
| contig00535 | 2074 | 2493 | fosA5_1 | 0/0 | 100.0 | 100.0 | EU195449 | fosA5 | Fosfomycin |
| contig00199 | 3019 | 6171 | oqxB_1 | 0/0 | 100.0 | 99.6 | EU370913 | oqxB | Nalidixic_acid, Ciprofloxacin |
| contig00021 | 11693 | 12349 | qnrS1_1 | 0/0 | 100.0 | 100.0 | AB187515 | qnrS1 | Ciprofloxacin |
| contig00021 | 23968 | 24783 | sul2_2 | 0/0 | 100.0 | 100.0 | AY034138 | sul2 | Sulfamethoxazole |
| contig00471 | 1514 | 2760 | tet(A)_6 | 0/0 | 97.8 | 100.0 | AF534183 | tet(A) | Doxycycline, Tetracycline |
CARD
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00021 | 23104 | 23907 | APH(3’’)-Ib | 0/0 | 100.0 | 99.8 | AF313472:15593-16397 | APH(3’’)-Ib is an aminoglycoside phosphotransferase encoded by plasmids transposons integrative conjugative elements and chromosomes in Enterobacteriaceae and Pseudomonas spp. | aminoglycoside |
| contig00021 | 22268 | 23104 | APH(6)-Id | 0/0 | 100.0 | 99.9 | AF024602:3155-3992 | APH(6)-Id is an aminoglycoside phosphotransferase encoded by plasmids integrative conjugative elements and chromosomal genomic islands in K. pneumoniae Salmonella spp. E. coli Shigella flexneri Providencia alcalifaciens Pseudomonas spp. V. cholerae Edwardsiella tarda Pasteurella multocida and Aeromonas bestiarum | aminoglycoside |
| contig00691 | 399 | 1040 | catII_from_Escherichia_coli_K-12 | 0/0 | 100.0 | 96.1 | X53796.1:186-828 | catII is a chloramphenicol acetyltransferase. This particular catII is found in E.coli K-12. Confers resistance to chloramphenicol. | phenicol |
| contig00021 | 16990 | 17865 | CTX-M-15 | 0/0 | 100.0 | 100.0 | AY044436:1435-2311 | CTX-M-15 is a beta-lactamase found in the Enterobacteriaceae family | cephalosporin |
| contig00668 | 183 | 665 | dfrA14 | 0/0 | 100.0 | 99.8 | EU780012:2162-2645 | dfrA14 is an integron-encoded dihydrofolate reductase found in Escherichia coli | diaminopyrimidine |
| contig00535 | 2074 | 2493 | FosA5 | 0/0 | 100.0 | 100.0 | KP143090.1:1619-1199 | fosA5 is a fosfomycin resistance gene isolated from clinical strain of Escherichia coli E265. It is susceptible to amikacin tetracycline and imipenem and resistant to sulphonamide cephalosporins gentamicin ciprofloxacin chloramphenicol and streptomycin | fosfomycin |
| contig00097 | 3116 | 4309 | Klebsiella_pneumoniae_acrA | 2/3 | 99.8 | 97.9 | AJ318073.1:793-1990 | AcrA is a subunit of the AcrAB multidrug efflux system that in K. pneumoniae which is encoded by the acrRAB operon. | cephalosporin, fluoroquinolone, glycylcycline, penam, phenicol, rifamycin, tetracycline, triclosan |
| contig00182 | 3863 | 4225 | Klebsiella_pneumoniae_KpnE | 0/0 | 100.0 | 99.5 | AP006725.1:2483889-2484252 | KpnE subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan | aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline |
| contig00182 | 3547 | 3876 | Klebsiella_pneumoniae_KpnF | 0/0 | 100.0 | 100.0 | AP006725.1:2484238-2484568 | KpnF subunit of KpnEF resembles EbrAB from E. coli. Mutation in KpnEF resulted in increased susceptibility to cefepime ceftriaxon colistin erythromycin rifampin tetracycline and streptomycin as well as enhanced sensitivity toward sodium dodecyl sulfate deoxycholate dyes benzalkonium chloride chlorhexidine and triclosan. | aminoglycoside, cephalosporin, macrolide, peptide, rifamycin, tetracycline |
| contig00328 | 1001 | 2155 | Klebsiella_pneumoniae_OmpK37 | 7/32 | 99.9 | 95.1 | AJ011502.1:300-1425 | Klebsiella pneumoniae outer membrane porin protein. Is preferentially detected in porin-deficient strains. Functional characterization of this new porin revealed a narrower pore than those of porins OmpK35 and OmpK36 which did not allow penetration by certain beta-lactams. Also when a resistant strain expresses porin OmpK37 is less susceptible to cefotaxime and cefoxitin than when it is expressing either OmpK36 or OmpK35. | carbapenem, cephalosporin, cephamycin, monobactam, penam, penem |
| contig00199 | 3019 | 6171 | oqxB | 0/0 | 100.0 | 99.6 | EU370913.1:47850-51003 | RND efflux pump conferring resistance to fluoroquinolone | diaminopyrimidine, fluoroquinolone, glycylcycline, nitrofuran, tetracycline |
| contig00021 | 11693 | 12349 | QnrS1 | 0/0 | 100.0 | 100.0 | DQ485529.1:0-657 | QnrS1 is a plasmid-mediated quinolone resistance protein found in Shigella flexneri | fluoroquinolone |
| contig00021 | 23968 | 24783 | sul2 | 0/0 | 100.0 | 100.0 | AY055428.1:21084-20268 | Sul2 is a sulfonamide resistant dihydropteroate synthase of Gram-negative bacteria usually found on small plasmids. | sulfonamide |
| contig00021 | 20687 | 21547 | TEM-1 | 0/0 | 100.0 | 99.9 | AL513383:161910-162771 | TEM-1 is a broad-spectrum beta-lactamase found in many Gram-negative bacteria. Confers resistance to penicillins and first generation cephalosphorins. | cephalosporin, monobactam, penam, penem |
| contig00471 | 1514 | 2760 | tet(A) | 0/0 | 97.8 | 100.0 | AF534183.1:2970-4245 | TetA is a tetracycline efflux pump found in many species of Gram-negative bacteria. | tetracycline |
ARG-ANNOT
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00021 | 23104 | 23907 | (AGly)strA | 0/0 | 100 | 99.9 | AB366441:22458-23261 | (AGly)strA | NA |
| contig00021 | 22268 | 23104 | (AGly)strB | 0/0 | 100 | 100.0 | FJ474091:264-1100 | (AGly)strB | NA |
| contig00166 | 5288 | 6448 | (Bla)ampH | 0/0 | 100 | 99.1 | CP003785:4208384-4209544 | (Bla)ampH | NA |
| contig00021 | 16990 | 17865 | (Bla)blaCTX-M-15 | 0/0 | 100 | 100.0 | JQ686199:261-1136 | (Bla)blaCTX-M-15 | NA |
| contig00021 | 20687 | 21547 | (Bla)blaTEM-105 | 0/0 | 100 | 99.9 | AF516720:215-1075 | (Bla)blaTEM-105 | NA |
| contig00535 | 2074 | 2493 | (Fcyn)FosA5 | 0/0 | 100 | 100.0 | KP143090:1200-1619 | (Fcyn)FosA5 | NA |
| contig00199 | 3019 | 6171 | (Flq)OqxBgb | 0/0 | 100 | 99.6 | EU370913:47851-51003 | (Flq)OqxBgb | NA |
| contig00021 | 11693 | 12349 | (Flq)qnr-S1 | 0/0 | 100 | 100.0 | AB187515:9737-10393 | (Flq)qnr-S1 | NA |
| contig00691 | 399 | 1040 | (Phe)catA2 | 0/0 | 100 | 96.1 | X53796:187-903 | (Phe)catA2 | NA |
| contig00021 | 23968 | 24783 | (Sul)sul2 | 0/0 | 100 | 100.0 | EU360945:1617-2432 | (Sul)sul2 | NA |
| contig00471 | 1486 | 2760 | (Tet)tetA | 0/0 | 100 | 100.0 | JX424423:94438-95712 | (Tet)tetA | NA |
| contig00668 | 183 | 656 | (Tmt)dfrA14 | 0/0 | 100 | 100.0 | GU726917:72-545 | (Tmt)dfrA14 | NA |
NCBI
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00021 | 23104 | 23931 | aph(3’’)-Ib | 0/0 | 100 | 100.0 | NG_056002.2 | aminoglycoside O-phosphotransferase APH(3’’)-Ib | STREPTOMYCIN |
| contig00021 | 22268 | 23104 | aph(6)-Id | 0/0 | 100 | 100.0 | NG_047464.1 | aminoglycoside O-phosphotransferase APH(6)-Id | STREPTOMYCIN |
| contig00021 | 16990 | 17865 | blaCTX-M-15 | 0/0 | 100 | 100.0 | NG_048935.1 | class A extended-spectrum beta-lactamase CTX-M-15 | CEPHALOSPORIN |
| contig00021 | 20687 | 21547 | blaTEM-1 | 0/0 | 100 | 100.0 | NG_050145.1 | class A broad-spectrum beta-lactamase TEM-1 | BETA-LACTAM |
| contig00691 | 399 | 1040 | catA2 | 0/0 | 100 | 100.0 | NG_047596.1 | type A-2 chloramphenicol O-acetyltransferase CatII | CHLORAMPHENICOL |
| contig00668 | 183 | 656 | dfrA14 | 0/0 | 100 | 100.0 | NG_056035.1 | trimethoprim-resistant dihydrofolate reductase DfrA14 | TRIMETHOPRIM |
| contig00535 | 2074 | 2493 | fosA5 | 0/0 | 100 | 100.0 | NG_050409.1 | fosfomycin resistance glutathione transferase FosA5 | FOSFOMYCIN |
| contig00199 | 3019 | 6171 | oqxB10 | 0/0 | 100 | 99.9 | NG_050428.1 | multidrug efflux RND transporter permease subunit OqxB10 | PHENICOL, QUINOLONE |
| contig00021 | 11693 | 12349 | qnrS1 | 0/0 | 100 | 100.0 | NG_050543.1 | quinolone resistance pentapeptide repeat protein QnrS1 | QUINOLONE |
| contig00021 | 23968 | 24783 | sul2 | 0/0 | 100 | 100.0 | NG_051852.1 | sulfonamide-resistant dihydropteroate synthase Sul2 | SULFONAMIDE |
| contig00471 | 1486 | 2685 | tet(A) | 0/0 | 100 | 100.0 | NG_048154.1 | tetracycline efflux MFS transporter Tet(A) | TETRACYCLINE |
MEGARES
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product | Resistance |
|---|---|---|---|---|---|---|---|---|---|
| contig00097 | 3116 | 4309 | ACRA | 2/3 | 99.8 | 97.9 | MEG_400 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:ACRA | NA |
| contig00166 | 5288 | 6448 | AMPH | 0/0 | 100.0 | 99.1 | MEG_730 | Drugs:betalactams:Penicillin_binding_protein:AMPH | NA |
| contig00021 | 23104 | 23931 | APH3-DPRIME | 0/0 | 100.0 | 100.0 | MEG_1019 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH3-DPRIME | NA |
| contig00021 | 22268 | 23104 | APH6 | 0/0 | 100.0 | 100.0 | MEG_1086 | Drugs:Aminoglycosides:Aminoglycoside_O-phosphotransferases:APH6 | NA |
| contig00691 | 399 | 1040 | CATA | 0/0 | 100.0 | 100.0 | MEG_1568 | Drugs:Phenicol:Chloramphenicol_acetyltransferases:CATA | NA |
| contig00078 | 7021 | 7719 | CPXAR | 0/0 | 100.0 | 99.7 | MEG_2116 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00078 | 7716 | 9089 | CPXAR | 0/0 | 100.0 | 99.2 | MEG_2115 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_regulator:CPXAR | NA |
| contig00012 | 23641 | 24583 | CTX | 0/0 | 100.0 | 95.0 | MEG_2435 | Drugs:betalactams:Class_A_betalactamases:CTX | NA |
| contig00016 | 12232 | 13174 | CTX | 0/0 | 100.0 | 91.6 | MEG_2435 | Drugs:betalactams:Class_A_betalactamases:CTX | NA |
| contig00668 | 183 | 656 | DFRA | 0/0 | 100.0 | 99.8 | MEG_2517 | Drugs:Trimethoprim:Dihydrofolate_reductase:DFRA | NA |
| contig00535 | 2074 | 2493 | FOSA | 0/0 | 100.0 | 100.0 | MEG_2995 | Drugs:Fosfomycin:Fosfomycin_thiol_transferases:FOSA | NA |
| contig00182 | 3863 | 4225 | KPNE | 0/0 | 100.0 | 99.5 | MEG_3514 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNE | NA |
| contig00182 | 3547 | 3876 | KPNF | 0/0 | 100.0 | 100.0 | MEG_3515 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNF | NA |
| contig00025 | 17992 | 19110 | KPNO | 6/33 | 99.5 | 91.9 | MEG_3516 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_pumps:KPNO | NA |
| contig00328 | 1001 | 2155 | OMP37 | 7/32 | 99.9 | 95.1 | MEG_4283 | Drugs:betalactams:Mutant_porin_proteins:OMP37 | NA |
| contig00199 | 3019 | 6171 | OQXB | 0/0 | 100.0 | 99.9 | MEG_4362 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_RND_efflux_pumps:OQXB | NA |
| contig00135 | 6270 | 7736 | PHOR | 0/0 | 100.0 | 99.7 | MEG_5786 | Multi-compound:Drug_and_biocide_resistance:Drug_and_biocide_SMR_efflux_regulator:PHOR | NA |
| contig00021 | 11693 | 12349 | QNRS | 0/0 | 100.0 | 100.0 | MEG_6020 | Drugs:Fluoroquinolones:Quinolone_resistance_protein_Qnr:QNRS | NA |
| contig00021 | 23968 | 24783 | SULII | 0/0 | 100.0 | 100.0 | MEG_6617 | Drugs:Sulfonamides:Sulfonamide-resistant_dihydropteroate_synthases:SULII | NA |
| contig00021 | 20320 | 21565 | TEM | 0/0 | 98.3 | 99.4 | MEG_6875 | Drugs:betalactams:Class_A_betalactamases:TEM | NA |
| contig00471 | 1486 | 2760 | TETA | 0/0 | 100.0 | 100.0 | MEG_7024 | Drugs:Tetracyclines:Tetracycline_resistance_MFS_efflux_pumps:TETA | NA |
Summary figures
Presence/Absence of antibiotic resistance genes (coverage and identity > 90%) on each sample
Select the database
Resfinder
CARD
ARG-ANNOT
NCBI
MEGARES
Plasmid Profiling
| Field | Description |
|---|---|
| Contig | Contig name where the gene was found |
| Start | Start position of the gene within the contig |
| End | End position of the gene within the contig |
| Gene | Antibiotic resistance gene |
| Gaps | Gaps in subject (genome) and query (antibiotic resistance gene) |
| Coverage | Proportion (%) of the gene covered |
| Identity | Proportion (%) of exact nucleotide matches |
| Accession | Accesion number of the antibiotic resistance gene |
| Product | Antibiotic resistance gene product |
Select sample
ID014
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00245 | 4101 | 4214 | Col440I_1 | 0/0 | 100 | 97.4 | CP023920.1 | Col440I_1__CP023920.1 |
| contig00025 | 39842 | 40401 | IncFIB(pKPHS1)_1_pKPHS1 | 0/0 | 100 | 99.6 | CP003223 | IncFIB(pKPHS1)_1_pKPHS1_CP003223 |
| contig00199 | 846 | 1096 | IncR_1 | 0/0 | 100 | 100.0 | DQ449578 | IncR_1__DQ449578 |
| contig00151 | 541 | 1305 | IncY_1 | 0/0 | 100 | 99.5 | K02380 | IncY_1__K02380 |
| contig00039 | 16174 | 16923 | pESA2_1 | 0/0 | 100 | 97.9 | CP000784 | pESA2_1__CP000784 |
ID022
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00021 | 40818 | 41377 | IncFIB(K)_1_Kpn3 | 0/0 | 100 | 99.5 | JN233704 | IncFIB(K)_1_Kpn3_JN233704 |
| contig00023 | 27518 | 27956 | IncFIB(Mar)_1_pNDM-Mar | 0/0 | 100 | 100.0 | JN420336 | IncFIB(Mar)_1_pNDM-Mar_JN420336 |
| contig00268 | 3308 | 3877 | IncHI1B_1_pNDM-MAR | 0/0 | 100 | 99.8 | JN420336 | IncHI1B_1_pNDM-MAR_JN420336 |
ID030III
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00081 | 5239 | 5612 | IncX1_1 | 0/0 | 100 | 98.7 | EU370913 | IncX1_1__EU370913 |
ID030II
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00026 | 747 | 1134 | IncFIA(HI1)_1_HI1 | 0/0 | 100 | 100.0 | AF250878 | IncFIA(HI1)_1_HI1_AF250878 |
| contig00034 | 38337 | 38756 | IncHI1A_1 | 0/0 | 100 | 99.8 | AF250878 | IncHI1A_1__AF250878 |
| contig00034 | 24721 | 25260 | IncHI1B(R27)_1_R27 | 0/0 | 100 | 100.0 | AF250878 | IncHI1B(R27)_1_R27_AF250878 |
| contig00043 | 5323 | 5696 | IncX1_1 | 0/0 | 100 | 98.9 | EU370913 | IncX1_1__EU370913 |
ID030I
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00084 | 3630 | 3771 | Col156_1 | 0/0 | 92.2 | 98.6 | NC_009781 | Col156_1__NC_009781 |
| contig00105 | 3338 | 3491 | Col156_1 | 0/0 | 100.0 | 94.8 | NC_009781 | Col156_1__NC_009781 |
| contig00077 | 10944 | 11331 | IncFIA_1 | 0/0 | 100.0 | 99.7 | AP001918 | IncFIA_1__AP001918 |
| contig00092 | 5014 | 5695 | IncFIB(AP001918)_1 | 0/0 | 100.0 | 96.6 | AP001918 | IncFIB(AP001918)_1__AP001918 |
| contig00059 | 13644 | 13785 | IncI1_1_Alpha | 0/0 | 100.0 | 100.0 | AP005147 | IncI1_1_Alpha_AP005147 |
ID042
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00073 | 400 | 632 | Col(BS512)_1 | 0/0 | 100.0 | 100.0 | NC_010656 | Col(BS512)_1__NC_010656 |
| contig00076 | 433 | 694 | Col(MG828)_1 | 0/0 | 100.0 | 93.5 | NC_008486 | Col(MG828)_1__NC_008486 |
| contig00061 | 641 | 794 | Col156_1 | 0/0 | 100.0 | 96.1 | NC_009781 | Col156_1__NC_009781 |
| contig00065 | 1519 | 1672 | Col156_1 | 0/0 | 100.0 | 94.8 | NC_009781 | Col156_1__NC_009781 |
| contig00033 | 19406 | 19560 | IncB/O/K/Z_2 | 1/1 | 96.2 | 96.1 | GU256641 | IncB/O/K/Z_2__GU256641 |
ID049
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00094 | 1523 | 1713 | ColpVC_1 | 0/0 | 99 | 96.9 | JX133088 | ColpVC_1__JX133088 |
| contig00056 | 3365 | 3752 | IncFIA_1 | 0/0 | 100 | 99.7 | AP001918 | IncFIA_1__AP001918 |
| contig00056 | 21766 | 22447 | IncFIB(AP001918)_1 | 0/0 | 100 | 98.4 | AP001918 | IncFIB(AP001918)_1__AP001918 |
| contig00050 | 28294 | 28554 | IncFII(pAMA1167-NDM-5)_1_pAMA1167-NDM-5 | 0/0 | 100 | 98.1 | CP024805.1 | IncFII(pAMA1167-NDM-5)_1_pAMA1167-NDM-5_CP024805.1 |
| contig00071 | 4489 | 4862 | IncX1_1 | 0/0 | 100 | 98.7 | EU370913 | IncX1_1__EU370913 |
ID051II
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00202 | 3429 | 3988 | IncFIB(K)_1_Kpn3 | 0/0 | 100 | 98.9 | JN233704 | IncFIB(K)_1_Kpn3_JN233704 |
| contig00009 | 32548 | 32986 | IncFIB(Mar)_1_pNDM-Mar | 0/0 | 100 | 100.0 | JN420336 | IncFIB(Mar)_1_pNDM-Mar_JN420336 |
| contig00325 | 3308 | 3877 | IncHI1B_1_pNDM-MAR | 0/0 | 100 | 99.8 | JN420336 | IncHI1B_1_pNDM-MAR_JN420336 |
ID064
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00283 | 1357 | 1470 | Col440I_1 | 0/0 | 100.0 | 97.4 | CP023920.1 | Col440I_1__CP023920.1 |
| contig00127 | 10456 | 10842 | IncFIA(HI1)_1_HI1 | 0/0 | 99.7 | 98.5 | AF250878 | IncFIA(HI1)_1_HI1_AF250878 |
| contig00111 | 5108 | 5358 | IncR_1 | 0/0 | 100.0 | 100.0 | DQ449578 | IncR_1__DQ449578 |
ID100
| Contig | Start | End | Gene | Gaps | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00110 | 6383 | 6942 | IncFIB(K)_1_Kpn3 | 0/0 | 100 | 98.9 | JN233704 | IncFIB(K)_1_Kpn3_JN233704 |
| contig00094 | 10483 | 10733 | IncR_1 | 0/0 | 100 | 99.6 | DQ449578 | IncR_1__DQ449578 |
Virulence Factor Determination
| Field | Description |
|---|---|
| Contig | Contig name where the gene was found |
| Start | Start position of the gene within the contig |
| End | End position of the gene within the contig |
| Gene | Antibiotic resistance gene |
| Coverage | Proportion (%) of the gene covered |
| Identity | Proportion (%) of exact nucleotide matches |
| Accession | Accesion number of the antibiotic resistance gene |
| Product | Antibiotic resistance gene product |
Select the sample
ID014
| Contig | Start | End | Strand | Gene | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00150 | 4851 | 5596 | + | entA | 99.3 | 80.3 | NP_752614 | (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00150 | 3990 | 4841 | + | entB | 99.2 | 82.5 | NP_752613 | (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00304 | 127 | 898 | + | fepC | 94.6 | 81.1 | NP_752606 | (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00061 | 9298 | 10374 | + | ompA | 100.0 | 83.2 | AAF37887 | (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00138 | 10711 | 11464 | + | yagV/ecpE | 99.7 | 85.4 | NP_286006 | (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00138 | 9142 | 10785 | + | yagW/ecpD | 100.0 | 88.9 | NP_286007 | (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00138 | 6627 | 9152 | + | yagX/ecpC | 100.0 | 87.5 | NP_286008 | (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00138 | 5933 | 6601 | + | yagY/ecpB | 100.0 | 87.7 | NP_286009 | (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00138 | 5287 | 5870 | + | yagZ/ecpA | 99.3 | 90.1 | NP_286010 | (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00138 | 4632 | 5212 | + | ykgK/ecpR | 98.3 | 86.4 | NP_286011 | (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
ID022
| Contig | Start | End | Strand | Gene | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00196 | 1582 | 2327 | + | entA | 99.2 | 80.6 | NP_752614 | (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00196 | 721 | 1572 | + | entB | 99.2 | 81.8 | NP_752613 | (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00350 | 125 | 896 | + | fepC | 94.6 | 80.8 | NP_752606 | (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00011 | 18128 | 19198 | - | ompA | 100.0 | 83.7 | AAF37887 | (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00145 | 10710 | 11463 | + | yagV/ecpE | 99.7 | 85.2 | NP_286006 | (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00145 | 9141 | 10784 | + | yagW/ecpD | 100.0 | 88.8 | NP_286007 | (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00145 | 6626 | 9151 | + | yagX/ecpC | 100.0 | 87.5 | NP_286008 | (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00145 | 5932 | 6600 | + | yagY/ecpB | 100.0 | 87.9 | NP_286009 | (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00145 | 5286 | 5869 | + | yagZ/ecpA | 99.3 | 90.1 | NP_286010 | (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00145 | 4631 | 5211 | + | ykgK/ecpR | 98.3 | 86.8 | NP_286011 | (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
ID030III
| Contig | Start | End | Strand | Gene | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00007 | 133050 | 133505 | - | csgB | 99.8 | 83.6 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00007 | 134260 | 134910 | + | csgD | 100.0 | 81.3 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00007 | 135329 | 135745 | + | csgF | 99.0 | 81.2 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00007 | 135772 | 136605 | + | csgG | 100.0 | 83.5 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00017 | 69960 | 70706 | - | entA | 100.0 | 95.7 | NP_752614 | (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00017 | 70706 | 71563 | - | entB | 100.0 | 98.1 | NP_752613 | (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00017 | 73197 | 74384 | - | entC | 100.0 | 97.9 | NP_752611 | (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00017 | 89028 | 89798 | + | entD | 100.0 | 94.3 | NP_752599 | (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00017 | 71577 | 73187 | - | entE | 100.0 | 95.4 | NP_752612 | (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00017 | 81247 | 85100 | - | entF | 99.3 | 95.7 | NP_752604 | (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00017 | 75707 | 76957 | - | entS | 100.0 | 95.4 | NP_752609 | (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073] |
| contig00001 | 175269 | 177170 | + | espL1 | 100.0 | 97.3 | NP_288154 | (espL1) Type III secretion system effector espL1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00010 | 52326 | 53381 | + | espR1 | 83.8 | 93.9 | NP_287686 | (espR1) Type III secretion system effector espR1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00008 | 132410 | 133830 | + | espX1 | 99.9 | 95.2 | NP_285716 | (espX1) Type III secretion system effector EspX1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00035 | 33404 | 34984 | - | espX4 | 99.9 | 93.3 | NP_290672 | (espX4) Type III secretion system effector EspX4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00019 | 69406 | 70698 | + | espX5 | 100.0 | 95.7 | NP_290699 | (espX5) Type III secretion system effector EspX5 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00058 | 15815 | 20063 | - | fdeC | 99.9 | 94.2 | YP_002390132 | (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88] |
| contig00017 | 86763 | 89003 | + | fepA | 100.0 | 96.8 | NP_752600 | (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00017 | 74747 | 75703 | + | fepB | 100.0 | 97.5 | NP_752610 | (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00017 | 79058 | 79873 | + | fepC | 100.0 | 97.3 | NP_752606 | (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00017 | 77056 | 78072 | + | fepD | 100.0 | 96.2 | NP_752608 | (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00017 | 78069 | 79061 | + | fepG | 100.0 | 94.0 | NP_752607 | (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00017 | 85318 | 86520 | - | fes | 100.0 | 96.6 | NP_752602 | (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073] |
| contig00055 | 24379 | 25290 | - | fimH | 100.0 | 97.6 | NP_757248 | (fimH) FimH protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00087 | 455 | 817 | + | gtrA | 100.0 | 90.4 | NP_706257 | (gtrA) bactoprenol-linked glucose translocase/flippase [LPS (VF0124)] [Shigella flexneri 2a str. 301] |
| contig00004 | 139745 | 140785 | - | ompA | 100.0 | 98.1 | AAF37887 | (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218] |
ID030II
| Contig | Start | End | Strand | Gene | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00032 | 15959 | 17387 | + | aslA | 100.0 | 97.3 | AAG10151 | (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00011 | 38568 | 39560 | - | chuU | 100.0 | 98.6 | NP_756179 | (chuU) heme permease protein ChuU [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00011 | 37801 | 38601 | - | chuV | 100.0 | 98.4 | NP_756180 | (chuV) ATP-binding hydrophilic protein ChuV [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00011 | 40739 | 42076 | - | chuW | 100.0 | 96.8 | NP_756176 | (chuW) Putative oxygen independent coproporphyrinogen III oxidase [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00011 | 39609 | 40232 | - | chuY | 100.0 | 97.0 | NP_756178 | (chuY) ChuY [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00055 | 9492 | 9947 | + | csgB | 99.8 | 83.8 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00055 | 8087 | 8737 | - | csgD | 100.0 | 81.3 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00055 | 7252 | 7668 | - | csgF | 99.0 | 81.0 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00055 | 6392 | 7225 | - | csgG | 100.0 | 83.3 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00012 | 56549 | 57295 | - | entA | 100.0 | 95.8 | NP_752614 | (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00012 | 57295 | 58152 | - | entB | 100.0 | 97.2 | NP_752613 | (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00012 | 59786 | 60973 | - | entC | 100.0 | 98.2 | NP_752611 | (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00012 | 75430 | 76200 | + | entD | 100.0 | 93.8 | NP_752599 | (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00012 | 58166 | 59776 | - | entE | 100.0 | 97.6 | NP_752612 | (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00012 | 67649 | 71502 | - | entF | 99.3 | 95.9 | NP_752604 | (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00012 | 62110 | 63360 | - | entS | 100.0 | 95.7 | NP_752609 | (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073] |
| contig00002 | 88059 | 89957 | - | espL1 | 100.0 | 96.4 | NP_288154 | (espL1) Type III secretion system effector espL1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00005 | 6786 | 8972 | - | espL4 | 100.0 | 97.1 | NP_290644 | (espL4) Type III secretion system effector EspL4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00038 | 14350 | 15600 | - | espR1 | 99.3 | 94.2 | NP_287686 | (espR1) Type III secretion system effector espR1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00007 | 106056 | 107477 | + | espX1 | 100.0 | 94.2 | NP_285716 | (espX1) Type III secretion system effector EspX1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00016 | 23867 | 25879 | - | espX2 | 100.0 | 96.7 | NP_286562 | (espX2) Type III secretion system effector EspX2 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00005 | 41200 | 42780 | + | espX4 | 100.0 | 94.3 | NP_290672 | (espX4) Type III secretion system effector EspX4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00005 | 72291 | 73583 | - | espX5 | 100.0 | 95.6 | NP_290699 | (espX5) Type III secretion system effector EspX5 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00007 | 66632 | 67351 | - | espY1 | 95.6 | 88.6 | NP_285753 | (espY1) Type III secretion system effector EspY1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00007 | 49652 | 50221 | - | espY2 | 100.0 | 94.0 | NP_285765 | (espY2) Type III secretion system effector EspY2 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00006 | 10532 | 12103 | + | espY3 | 100.0 | 95.4 | NP_286160 | (espY3) Type III secretion system effector EspY3 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00017 | 39417 | 41825 | + | espY4 | 100.0 | 92.7 | NP_290352 | (espY4) Type III secretion system effector EspY4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00006 | 136337 | 140578 | - | fdeC | 99.8 | 91.3 | YP_002390132 | (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88] |
| contig00012 | 73165 | 75405 | + | fepA | 100.0 | 97.2 | NP_752600 | (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00012 | 61150 | 62106 | + | fepB | 100.0 | 97.0 | NP_752610 | (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00012 | 65461 | 66276 | + | fepC | 100.0 | 97.3 | NP_752606 | (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00012 | 63459 | 64475 | + | fepD | 100.0 | 95.7 | NP_752608 | (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00012 | 64472 | 65464 | + | fepG | 100.0 | 95.1 | NP_752607 | (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00012 | 71720 | 72922 | - | fes | 100.0 | 97.4 | NP_752602 | (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073] |
| contig00001 | 34912 | 35742 | - | gspC | 100.0 | 95.4 | YP_404599 | (gspC) general secretion pathway protein C [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00001 | 32822 | 34672 | - | gspD | 100.0 | 95.5 | YP_404600 | (gspD) general secretion pathway protein D [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00001 | 31329 | 32822 | - | gspE | 100.0 | 95.3 | YP_404601 | (gspE) general secretion pathway protein E [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00001 | 30130 | 31329 | - | gspF | 100.0 | 91.5 | YP_404602 | (gspF) general secretion pathway protein F [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00001 | 29634 | 30089 | - | gspG | 100.0 | 97.4 | YP_404603 | (gspG) general secretion pathway protein G [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00001 | 29067 | 29597 | - | gspH | 100.0 | 96.2 | YP_404604 | (gspH) general secretion pathway protein H [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00001 | 28699 | 29070 | - | gspI | 100.0 | 94.9 | YP_404605 | (gspI) general secretion pathway protein I [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00001 | 28097 | 28666 | - | gspJ | 100.0 | 94.2 | YP_404606 | (gspJ) general secretion pathway protein J [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00001 | 27123 | 28100 | - | gspK | 100.0 | 96.7 | YP_404607 | (gspK) general secretion pathway protein K [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00001 | 25948 | 26808 | - | gspL | 100.0 | 95.1 | YP_404608 | (gspL) general secretion pathway protein L [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00001 | 25411 | 25832 | - | gspM | 99.8 | 93.4 | YP_404609 | (gspM) general secretion pathway protein M [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00045 | 33671 | 34900 | + | iroD | 100.0 | 99.6 | NP_753166 | (iroD) esterase [Salmochelin (IA013)] [Escherichia coli CFT073] |
| contig00045 | 34985 | 35942 | + | iroE | 100.0 | 99.0 | NP_753165 | (iroE) esterase [Salmochelin (IA013)] [Escherichia coli CFT073] |
| contig00001 | 10717 | 12393 | + | kpsD | 100.0 | 99.5 | AAA21682 | (kpsD) KpsD [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00001 | 23461 | 24237 | - | kpsM | 100.0 | 94.1 | AAA24046 | (kpsM) KpsM [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00028 | 26052 | 27104 | - | ompA | 100.0 | 95.2 | AAF37887 | (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00090 | 961 | 1512 | + | papX | 100.0 | 97.5 | NP_755457 | (papX) PapX protein regulates flagellum synthesis to repress motility [P fimbriae (CVF425)] [Escherichia coli CFT073] |
| contig00031 | 34913 | 39031 | - | pic | 100.0 | 100.0 | YP_006098864 | (pic) Pic serine protease precursor autotransporter [Pic (VF0218)] [Escherichia coli O44:H18 042] |
| contig00011 | 43694 | 45676 | + | shuA | 100.0 | 98.9 | YP_405019 | (shuA) outer membrane heme/hemoglobin receptor ShuA [Shu (VF0256)] [Shigella dysenteriae Sd197] |
| contig00011 | 45725 | 46753 | + | shuS | 100.0 | 96.7 | YP_405020 | (shuS) heme/hemoglobin transport protein ShuS [Shu (VF0256)] [Shigella dysenteriae Sd197] |
| contig00011 | 42096 | 43088 | - | shuT | 100.0 | 97.8 | YP_405017 | (shuT) periplasmic binding protein ShuT [Shu (VF0256)] [Shigella dysenteriae Sd197] |
| contig00011 | 40232 | 40726 | - | shuX | 100.0 | 96.6 | YP_405016 | (shuX) shu locus protein ShuX [Shu (VF0256)] [Shigella dysenteriae Sd197] |
| contig00006 | 155988 | 156741 | + | yagV/ecpE | 99.7 | 96.8 | NP_286006 | (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00006 | 154421 | 156064 | + | yagW/ecpD | 100.0 | 98.2 | NP_286007 | (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00006 | 151906 | 154431 | + | yagX/ecpC | 100.0 | 98.8 | NP_286008 | (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00006 | 151212 | 151880 | + | yagY/ecpB | 100.0 | 97.6 | NP_286009 | (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00006 | 150567 | 151154 | + | yagZ/ecpA | 100.0 | 99.3 | NP_286010 | (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00006 | 149903 | 150493 | + | ykgK/ecpR | 100.0 | 98.8 | NP_286011 | (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
ID030I
| Contig | Start | End | Strand | Gene | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00022 | 33699 | 35127 | + | aslA | 100.0 | 98.5 | AAG10151 | (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00057 | 17402 | 19348 | + | chuA | 100.0 | 99.7 | NP_756170 | (chuA) Outer membrane heme/hemoglobin receptor ChuA [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00057 | 19397 | 20425 | + | chuS | 100.0 | 99.5 | NP_756169 | (chuS) heme oxygenase ChuS [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00057 | 15768 | 16760 | - | chuT | 100.0 | 99.7 | NP_756175 | (chuT) periplasmic heme-binding protein ChuT [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00057 | 12240 | 13232 | - | chuU | 100.0 | 99.5 | NP_756179 | (chuU) heme permease protein ChuU [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00057 | 11473 | 12273 | - | chuV | 100.0 | 99.8 | NP_756180 | (chuV) ATP-binding hydrophilic protein ChuV [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00057 | 14411 | 15748 | - | chuW | 100.0 | 99.1 | NP_756176 | (chuW) Putative oxygen independent coproporphyrinogen III oxidase [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00057 | 13904 | 14398 | - | chuX | 100.0 | 100.0 | NP_756177 | (chuX) putative heme-binding protein ChuX [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00057 | 13281 | 13904 | - | chuY | 100.0 | 98.4 | NP_756178 | (chuY) ChuY [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00005 | 134766 | 135221 | + | csgB | 99.8 | 83.6 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00005 | 133363 | 134013 | - | csgD | 100.0 | 81.3 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00005 | 132528 | 132944 | - | csgF | 99.0 | 80.8 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00005 | 131668 | 132501 | - | csgG | 100.0 | 83.3 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00021 | 19049 | 19795 | - | entA | 100.0 | 98.4 | NP_752614 | (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00021 | 19795 | 20652 | - | entB | 100.0 | 99.2 | NP_752613 | (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00021 | 22286 | 23473 | - | entC | 100.0 | 99.7 | NP_752611 | (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00021 | 37931 | 38592 | + | entD | 85.9 | 92.8 | NP_752599 | (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00021 | 20666 | 22276 | - | entE | 100.0 | 99.1 | NP_752612 | (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00021 | 30150 | 34003 | - | entF | 99.3 | 98.4 | NP_752604 | (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00021 | 24610 | 25860 | - | entS | 100.0 | 98.8 | NP_752609 | (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073] |
| contig00023 | 22805 | 27055 | - | fdeC | 100.0 | 99.6 | YP_002390132 | (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88] |
| contig00021 | 35666 | 37906 | + | fepA | 100.0 | 98.9 | NP_752600 | (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00021 | 23650 | 24606 | + | fepB | 100.0 | 99.8 | NP_752610 | (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00021 | 27961 | 28776 | + | fepC | 100.0 | 99.4 | NP_752606 | (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00021 | 25959 | 26975 | + | fepD | 100.0 | 99.5 | NP_752608 | (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00021 | 26972 | 27964 | + | fepG | 100.0 | 99.8 | NP_752607 | (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00021 | 34221 | 35423 | - | fes | 100.0 | 99.8 | NP_752602 | (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073] |
| contig00009 | 129380 | 129985 | - | fimA | 100.0 | 92.2 | NP_757241 | (fimA) Type-1 fimbrial protein A chain precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00114 | 1112 | 1714 | - | fimB | 100.0 | 98.2 | NP_757239 | (fimB) Type 1 fimbriae Regulatory protein fimB [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00009 | 128014 | 128739 | - | fimC | 100.0 | 98.5 | NP_757243 | (fimC) Chaperone protein fimC precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00009 | 125311 | 127947 | - | fimD | 100.0 | 98.3 | NP_757244 | (fimD) Outer membrane usher protein fimD precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00114 | 38 | 634 | - | fimE | 100.0 | 98.7 | NP_757240 | (fimE) Type 1 fimbriae Regulatory protein fimE [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00009 | 124771 | 125304 | - | fimF | 100.0 | 97.4 | NP_757245 | (fimF) FimF protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00009 | 124255 | 124758 | - | fimG | 100.0 | 98.0 | NP_757247 | (fimG) FimG protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00009 | 123333 | 124244 | - | fimH | 100.0 | 97.2 | NP_757248 | (fimH) FimH protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00009 | 128776 | 129315 | - | fimI | 100.0 | 98.3 | NP_757242 | (fimI) Fimbrin-like protein fimI precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00004 | 77994 | 80015 | - | fyuA | 100.0 | 100.0 | NP_405467 | (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00002 | 187628 | 188458 | + | gspC | 100.0 | 93.9 | YP_404599 | (gspC) general secretion pathway protein C [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00002 | 188698 | 190548 | + | gspD | 100.0 | 96.1 | YP_404600 | (gspD) general secretion pathway protein D [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00002 | 190548 | 192041 | + | gspE | 100.0 | 94.9 | YP_404601 | (gspE) general secretion pathway protein E [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00002 | 192041 | 193240 | + | gspF | 100.0 | 94.2 | YP_404602 | (gspF) general secretion pathway protein F [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00002 | 193281 | 193736 | + | gspG | 100.0 | 96.0 | YP_404603 | (gspG) general secretion pathway protein G [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00002 | 193773 | 194303 | + | gspH | 100.0 | 94.7 | YP_404604 | (gspH) general secretion pathway protein H [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00002 | 194300 | 194671 | + | gspI | 100.0 | 92.2 | YP_404605 | (gspI) general secretion pathway protein I [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00002 | 194704 | 195273 | + | gspJ | 100.0 | 94.4 | YP_404606 | (gspJ) general secretion pathway protein J [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00002 | 195270 | 196247 | + | gspK | 100.0 | 96.6 | YP_404607 | (gspK) general secretion pathway protein K [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00002 | 196562 | 197422 | + | gspL | 100.0 | 94.8 | YP_404608 | (gspL) general secretion pathway protein L [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00002 | 197538 | 197959 | + | gspM | 99.8 | 93.6 | YP_404609 | (gspM) general secretion pathway protein M [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00004 | 83624 | 93115 | - | irp1 | 100.0 | 99.3 | NP_405471 | (irp1) yersiniabactin biosynthetic protein Irp1 [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00004 | 93205 | 99309 | - | irp2 | 100.0 | 98.9 | NP_405472 | (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00065 | 10165 | 11946 | + | iucA | 100.0 | 99.8 | NP_709454 | (iucA) aerobactin synthesis protein IucA [Aerobactin (VF0123)] [Shigella flexneri 2a str. 301] |
| contig00065 | 11947 | 12894 | + | iucB | 100.0 | 99.8 | NP_709455 | (iucB) aerobactin synthesis protein IucB [Aerobactin (VF0123)] [Shigella flexneri 2a str. 301] |
| contig00065 | 12894 | 14636 | + | iucC | 100.0 | 98.2 | NP_755500 | (iucC) aerobactin siderophore biosynthesis protein IucC [Aerobactin (VF0229)] [Escherichia coli CFT073] |
| contig00065 | 14633 | 15954 | + | iucD | 98.8 | 96.3 | NP_755499 | (iucD) L-lysine 6-monooxygenase IucD [Aerobactin (VF0229)] [Escherichia coli CFT073] |
| contig00065 | 15892 | 18193 | + | iutA | 100.0 | 88.4 | NP_755498 | (iutA) ferric aerobactin receptor precusor IutA [Aerobactin (VF0229)] [Escherichia coli CFT073] |
| contig00002 | 211113 | 212789 | - | kpsD | 100.0 | 99.0 | AAA21682 | (kpsD) KpsD [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00002 | 199019 | 199795 | + | kpsM | 100.0 | 99.9 | AAA24046 | (kpsM) KpsM [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00002 | 199792 | 200451 | + | kpsT | 100.0 | 100.0 | AAA24047 | (kpsT) KpsT [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00005 | 63657 | 64697 | - | ompA | 100.0 | 99.5 | AAF37887 | (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00065 | 747 | 1060 | - | papB | 99.7 | 98.4 | (papB) regulatory protein PapB [P fimbriae (VF0220)] [Escherichia coli CFT073] | |
| contig00065 | 1465 | 1698 | + | papI | 100.0 | 94.9 | NP_755468 | (papI) regulatory protein PapI [P fimbriae (VF0220)] [Escherichia coli CFT073] |
| contig00150 | 256 | 807 | + | papX | 100.0 | 97.5 | NP_755457 | (papX) PapX protein regulates flagellum synthesis to repress motility [P fimbriae (CVF425)] [Escherichia coli CFT073] |
| contig00065 | 19128 | 23028 | + | sat | 100.0 | 99.5 | NP_755494 | (sat) Aecreted auto transpoter toxin [Sat (VF0231)] [Escherichia coli CFT073] |
| contig00084 | 8438 | 9576 | + | senB | 99.9 | 99.7 | YP_406304 | (senB) enterotoxin [ShET2 (VF0258)] [Shigella flexneri 2a str. 301] |
| contig00023 | 46763 | 50894 | + | vat | 100.0 | 99.7 | NP_752330 | (vat) Haemoglobin protease [Tsh (VF0233)] [Escherichia coli CFT073] |
| contig00023 | 42393 | 43146 | + | yagV/ecpE | 99.7 | 98.4 | NP_286006 | (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00023 | 40826 | 42469 | + | yagW/ecpD | 100.0 | 99.2 | NP_286007 | (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00023 | 38311 | 40836 | + | yagX/ecpC | 100.0 | 97.7 | NP_286008 | (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00023 | 37617 | 38285 | + | yagY/ecpB | 100.0 | 98.1 | NP_286009 | (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00023 | 36973 | 37560 | + | yagZ/ecpA | 100.0 | 98.5 | NP_286010 | (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00004 | 99500 | 100459 | - | ybtA | 100.0 | 99.5 | NP_405473 | (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00004 | 80146 | 81723 | - | ybtE | 100.0 | 99.8 | NP_405468 | (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00004 | 100626 | 102428 | + | ybtP | 100.0 | 99.6 | NP_405474 | (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00004 | 102415 | 104217 | + | ybtQ | 100.0 | 99.8 | NP_405475 | (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00004 | 105518 | 106822 | + | ybtS | 100.0 | 99.8 | NP_405477 | (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00004 | 81727 | 82530 | - | ybtT | 100.0 | 99.5 | NP_405469 | (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00004 | 82527 | 83627 | - | ybtU | 100.0 | 99.7 | NP_405470 | (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00004 | 104210 | 105490 | + | ybtX | 100.0 | 99.6 | NP_405476 | (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00023 | 36308 | 36898 | + | ykgK/ecpR | 100.0 | 99.3 | NP_286011 | (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
ID042
| Contig | Start | End | Strand | Gene | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00020 | 74837 | 76265 | + | aslA | 100.0 | 98.5 | AAG10151 | (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00005 | 177711 | 179657 | - | chuA | 100.0 | 99.7 | NP_756170 | (chuA) Outer membrane heme/hemoglobin receptor ChuA [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00005 | 176634 | 177662 | - | chuS | 100.0 | 99.5 | NP_756169 | (chuS) heme oxygenase ChuS [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00005 | 180299 | 181291 | + | chuT | 100.0 | 99.7 | NP_756175 | (chuT) periplasmic heme-binding protein ChuT [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00005 | 183827 | 184819 | + | chuU | 100.0 | 99.5 | NP_756179 | (chuU) heme permease protein ChuU [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00005 | 184786 | 185586 | + | chuV | 100.0 | 99.8 | NP_756180 | (chuV) ATP-binding hydrophilic protein ChuV [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00005 | 181311 | 182648 | + | chuW | 100.0 | 99.1 | NP_756176 | (chuW) Putative oxygen independent coproporphyrinogen III oxidase [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00005 | 182661 | 183155 | + | chuX | 100.0 | 100.0 | NP_756177 | (chuX) putative heme-binding protein ChuX [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00005 | 183155 | 183778 | + | chuY | 100.0 | 98.4 | NP_756178 | (chuY) ChuY [Chu (VF0227)] [Escherichia coli CFT073] |
| contig00001 | 199382 | 199837 | + | csgB | 99.8 | 83.6 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00001 | 197979 | 198629 | - | csgD | 100.0 | 81.3 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00001 | 197144 | 197560 | - | csgF | 99.0 | 80.8 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00001 | 196284 | 197117 | - | csgG | 100.0 | 83.3 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00009 | 131850 | 132596 | - | entA | 100.0 | 98.4 | NP_752614 | (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00009 | 132596 | 133453 | - | entB | 100.0 | 99.2 | NP_752613 | (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00009 | 135087 | 136274 | - | entC | 100.0 | 99.7 | NP_752611 | (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00009 | 150732 | 151393 | + | entD | 85.9 | 92.8 | NP_752599 | (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00009 | 133467 | 135077 | - | entE | 100.0 | 99.1 | NP_752612 | (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00009 | 142951 | 146804 | - | entF | 99.3 | 98.4 | NP_752604 | (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00009 | 137411 | 138661 | - | entS | 100.0 | 98.8 | NP_752609 | (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073] |
| contig00026 | 22805 | 27055 | - | fdeC | 100.0 | 99.6 | YP_002390132 | (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88] |
| contig00009 | 148467 | 150707 | + | fepA | 100.0 | 98.9 | NP_752600 | (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00009 | 136451 | 137407 | + | fepB | 100.0 | 99.8 | NP_752610 | (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00009 | 140762 | 141577 | + | fepC | 100.0 | 99.4 | NP_752606 | (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00009 | 138760 | 139776 | + | fepD | 100.0 | 99.5 | NP_752608 | (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00009 | 139773 | 140765 | + | fepG | 100.0 | 99.8 | NP_752607 | (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00009 | 147022 | 148224 | - | fes | 100.0 | 99.8 | NP_752602 | (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073] |
| contig00003 | 218092 | 218697 | - | fimA | 100.0 | 92.2 | NP_757241 | (fimA) Type-1 fimbrial protein A chain precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00030 | 1416 | 2018 | - | fimB | 100.0 | 98.2 | NP_757239 | (fimB) Type 1 fimbriae Regulatory protein fimB [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00003 | 216726 | 217451 | - | fimC | 100.0 | 98.5 | NP_757243 | (fimC) Chaperone protein fimC precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00003 | 214023 | 216659 | - | fimD | 100.0 | 98.3 | NP_757244 | (fimD) Outer membrane usher protein fimD precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00030 | 342 | 938 | - | fimE | 100.0 | 98.7 | NP_757240 | (fimE) Type 1 fimbriae Regulatory protein fimE [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00003 | 213483 | 214016 | - | fimF | 100.0 | 97.4 | NP_757245 | (fimF) FimF protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00003 | 212967 | 213470 | - | fimG | 100.0 | 98.0 | NP_757247 | (fimG) FimG protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00003 | 212045 | 212956 | - | fimH | 100.0 | 97.2 | NP_757248 | (fimH) FimH protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00003 | 217488 | 218027 | - | fimI | 100.0 | 98.3 | NP_757242 | (fimI) Fimbrin-like protein fimI precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00034 | 30465 | 32486 | + | fyuA | 100.0 | 100.0 | NP_405467 | (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00034 | 17365 | 26856 | + | irp1 | 100.0 | 99.3 | NP_405471 | (irp1) yersiniabactin biosynthetic protein Irp1 [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00034 | 11171 | 17275 | + | irp2 | 100.0 | 98.9 | NP_405472 | (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00051 | 1 | 1702 | + | iucA | 95.5 | 99.9 | NP_709454 | (iucA) aerobactin synthesis protein IucA [Aerobactin (VF0123)] [Shigella flexneri 2a str. 301] |
| contig00051 | 1703 | 2650 | + | iucB | 100.0 | 99.8 | NP_709455 | (iucB) aerobactin synthesis protein IucB [Aerobactin (VF0123)] [Shigella flexneri 2a str. 301] |
| contig00051 | 2650 | 4392 | + | iucC | 100.0 | 98.2 | NP_755500 | (iucC) aerobactin siderophore biosynthesis protein IucC [Aerobactin (VF0229)] [Escherichia coli CFT073] |
| contig00051 | 4389 | 5710 | + | iucD | 98.8 | 96.3 | NP_755499 | (iucD) L-lysine 6-monooxygenase IucD [Aerobactin (VF0229)] [Escherichia coli CFT073] |
| contig00051 | 5648 | 7949 | + | iutA | 100.0 | 88.4 | NP_755498 | (iutA) ferric aerobactin receptor precusor IutA [Aerobactin (VF0229)] [Escherichia coli CFT073] |
| contig00016 | 3855 | 5344 | + | kpsD | 88.8 | 99.3 | AAA21682 | (kpsD) KpsD [K1 capsule (VF0239)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00001 | 128273 | 129313 | - | ompA | 100.0 | 99.5 | AAF37887 | (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00053 | 749 | 1062 | - | papB | 99.7 | 98.4 | (papB) regulatory protein PapB [P fimbriae (VF0220)] [Escherichia coli CFT073] | |
| contig00053 | 1467 | 1700 | + | papI | 100.0 | 94.9 | NP_755468 | (papI) regulatory protein PapI [P fimbriae (VF0220)] [Escherichia coli CFT073] |
| contig00078 | 256 | 807 | + | papX | 100.0 | 97.5 | NP_755457 | (papX) PapX protein regulates flagellum synthesis to repress motility [P fimbriae (CVF425)] [Escherichia coli CFT073] |
| contig00051 | 8884 | 12784 | + | sat | 100.0 | 99.5 | NP_755494 | (sat) Aecreted auto transpoter toxin [Sat (VF0231)] [Escherichia coli CFT073] |
| contig00026 | 46763 | 50893 | + | vat | 100.0 | 99.7 | NP_752330 | (vat) Haemoglobin protease [Tsh (VF0233)] [Escherichia coli CFT073] |
| contig00026 | 42393 | 43146 | + | yagV/ecpE | 99.7 | 98.4 | NP_286006 | (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00026 | 40826 | 42469 | + | yagW/ecpD | 100.0 | 99.2 | NP_286007 | (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00026 | 38311 | 40836 | + | yagX/ecpC | 100.0 | 97.7 | NP_286008 | (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00026 | 37617 | 38285 | + | yagY/ecpB | 100.0 | 98.1 | NP_286009 | (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00026 | 36973 | 37560 | + | yagZ/ecpA | 100.0 | 98.5 | NP_286010 | (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00034 | 10021 | 10980 | + | ybtA | 100.0 | 99.5 | NP_405473 | (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00034 | 28757 | 30334 | + | ybtE | 100.0 | 99.8 | NP_405468 | (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00034 | 8052 | 9854 | - | ybtP | 100.0 | 99.6 | NP_405474 | (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00034 | 6263 | 8065 | - | ybtQ | 100.0 | 99.8 | NP_405475 | (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00034 | 3658 | 4962 | - | ybtS | 100.0 | 99.8 | NP_405477 | (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00034 | 27950 | 28753 | + | ybtT | 100.0 | 99.5 | NP_405469 | (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00034 | 26853 | 27953 | + | ybtU | 100.0 | 99.7 | NP_405470 | (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00034 | 4990 | 6270 | - | ybtX | 100.0 | 99.6 | NP_405476 | (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00026 | 36308 | 36898 | + | ykgK/ecpR | 100.0 | 99.3 | NP_286011 | (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
ID049
| Contig | Start | End | Strand | Gene | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00018 | 49272 | 50700 | + | aslA | 100.0 | 93.6 | AAG10151 | (aslA) putative arylsulfatase [AslA (VF0238)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00015 | 6357 | 6812 | + | csgB | 99.8 | 83.8 | NP_460114 | (csgB) minor curlin subunit precursor curli nucleator protein CsgB [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00015 | 4952 | 5602 | - | csgD | 100.0 | 81.1 | NP_460113 | (csgD) DNA-binding transcriptional regulator CsgD [curli fibers/thin aggregative fimbriae (AGF) (AI094)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00015 | 4117 | 4533 | - | csgF | 99.0 | 81.2 | NP_460111 | (csgF) curli production assembly/transport protein CsgF [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00015 | 3257 | 4090 | - | csgG | 100.0 | 83.5 | NP_460110 | (csgG) curli production assembly/transport protein CsgG [Agf (VF0103)] [Salmonella enterica subsp. enterica serovar Typhimurium str. LT2] |
| contig00010 | 99075 | 99821 | - | entA | 100.0 | 95.7 | NP_752614 | (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00010 | 99821 | 100678 | - | entB | 100.0 | 98.1 | NP_752613 | (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00010 | 102312 | 103499 | - | entC | 100.0 | 97.9 | NP_752611 | (entC) isochorismate synthase 1 [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00010 | 118143 | 118913 | + | entD | 100.0 | 95.2 | NP_752599 | (entD) phosphopantetheinyl transferase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00010 | 100692 | 102302 | - | entE | 100.0 | 95.5 | NP_752612 | (entE) 23-dihydroxybenzoate-AMP ligase component of enterobactin synthase multienzyme complex [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00010 | 110362 | 114215 | - | entF | 99.3 | 95.7 | NP_752604 | (entF) enterobactin synthase multienzyme complex component ATP-dependent [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00010 | 104822 | 106072 | - | entS | 100.0 | 95.4 | NP_752609 | (entS) enterobactin exporter iron-regulated [enterobactin (IA019)] [Escherichia coli CFT073] |
| contig00021 | 14515 | 16414 | + | espL1 | 100.0 | 97.6 | NP_288154 | (espL1) Type III secretion system effector espL1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00039 | 37583 | 39769 | + | espL4 | 100.0 | 97.3 | NP_290644 | (espL4) Type III secretion system effector EspL4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00044 | 25267 | 26320 | + | espR1 | 83.7 | 93.8 | NP_287686 | (espR1) Type III secretion system effector espR1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00007 | 25291 | 26425 | - | espR4 | 99.5 | 84.3 | NP_288396 | (espR4) Type III secretion system effector espR4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00003 | 50504 | 51925 | - | espX1 | 100.0 | 93.2 | NP_285716 | (espX1) Type III secretion system effector EspX1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00039 | 7787 | 9367 | - | espX4 | 99.9 | 93.2 | NP_290672 | (espX4) Type III secretion system effector EspX4 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00030 | 42324 | 43616 | + | espX5 | 100.0 | 97.1 | NP_290699 | (espX5) Type III secretion system effector EspX5 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00003 | 90075 | 90886 | + | espY1 | 99.9 | 87.0 | NP_285753 | (espY1) Type III secretion system effector EspY1 [LEE encoded T3SS (SS020)] [Escherichia coli O157:H7 str. EDL933] |
| contig00058 | 17762 | 22010 | - | fdeC | 99.9 | 94.2 | YP_002390132 | (fdeC) adhesin FdeC [FdeC (VF0506)] [Escherichia coli O45:K1:H7 str. S88] |
| contig00010 | 115878 | 118118 | + | fepA | 100.0 | 96.7 | NP_752600 | (fepA) ferrienterobactin outer membrane transporter [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00010 | 103862 | 104818 | + | fepB | 100.0 | 97.5 | NP_752610 | (fepB) ferrienterobactin ABC transporter periplasmic binding protein [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00010 | 108173 | 108988 | + | fepC | 100.0 | 97.3 | NP_752606 | (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00010 | 106171 | 107187 | + | fepD | 100.0 | 96.1 | NP_752608 | (fepD) ferrienterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00010 | 107184 | 108176 | + | fepG | 100.0 | 94.1 | NP_752607 | (fepG) iron-enterobactin ABC transporter permease [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00010 | 114433 | 115635 | - | fes | 100.0 | 96.7 | NP_752602 | (fes) enterobactin/ferric enterobactin esterase [enterobactin (IA019)] [Escherichia coli CFT073] |
| contig00048 | 25238 | 25849 | - | fimA | 100.0 | 88.6 | NP_757241 | (fimA) Type-1 fimbrial protein A chain precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00048 | 27347 | 27949 | - | fimB | 100.0 | 98.2 | NP_757239 | (fimB) Type 1 fimbriae Regulatory protein fimB [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00048 | 23872 | 24597 | - | fimC | 100.0 | 98.9 | NP_757243 | (fimC) Chaperone protein fimC precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00048 | 21169 | 23805 | - | fimD | 100.0 | 98.6 | NP_757244 | (fimD) Outer membrane usher protein fimD precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00048 | 26276 | 26870 | - | fimE | 99.7 | 99.3 | NP_757240 | (fimE) Type 1 fimbriae Regulatory protein fimE [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00048 | 20629 | 21162 | - | fimF | 100.0 | 97.9 | NP_757245 | (fimF) FimF protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00048 | 20113 | 20616 | - | fimG | 100.0 | 97.8 | NP_757247 | (fimG) FimG protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00048 | 19191 | 20102 | - | fimH | 100.0 | 97.4 | NP_757248 | (fimH) FimH protein precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00048 | 24634 | 25173 | - | fimI | 100.0 | 98.7 | NP_757242 | (fimI) Fimbrin-like protein fimI precursor [Type 1 fimbriae (VF0221)] [Escherichia coli CFT073] |
| contig00007 | 86337 | 88358 | + | fyuA | 100.0 | 99.9 | NP_405467 | (fyuA) pesticin/yersiniabactin receptor protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00004 | 48251 | 49081 | - | gspC | 100.0 | 94.7 | YP_404599 | (gspC) general secretion pathway protein C [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00004 | 46161 | 48011 | - | gspD | 100.0 | 96.1 | YP_404600 | (gspD) general secretion pathway protein D [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00004 | 44668 | 46161 | - | gspE | 100.0 | 96.9 | YP_404601 | (gspE) general secretion pathway protein E [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00004 | 43469 | 44668 | - | gspF | 100.0 | 96.0 | YP_404602 | (gspF) general secretion pathway protein F [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00004 | 42973 | 43428 | - | gspG | 100.0 | 95.0 | YP_404603 | (gspG) general secretion pathway protein G [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00004 | 42407 | 42936 | - | gspH | 99.8 | 94.9 | YP_404604 | (gspH) general secretion pathway protein H [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00004 | 42039 | 42410 | - | gspI | 100.0 | 95.2 | YP_404605 | (gspI) general secretion pathway protein I [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00004 | 41437 | 42006 | - | gspJ | 100.0 | 96.7 | YP_404606 | (gspJ) general secretion pathway protein J [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00004 | 40463 | 41440 | - | gspK | 100.0 | 97.0 | YP_404607 | (gspK) general secretion pathway protein K [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00004 | 39288 | 40148 | - | gspL | 100.0 | 97.0 | YP_404608 | (gspL) general secretion pathway protein L [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00004 | 38750 | 39172 | - | gspM | 100.0 | 98.3 | YP_404609 | (gspM) general secretion pathway protein M [T2SS (VF0333)] [Shigella dysenteriae Sd197] |
| contig00007 | 73237 | 82728 | + | irp1 | 100.0 | 99.3 | NP_405471 | (irp1) yersiniabactin biosynthetic protein Irp1 [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00007 | 67042 | 73149 | + | irp2 | 100.0 | 99.8 | NP_405472 | (irp2) yersiniabactin biosynthetic protein Irp2 [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00002 | 145353 | 146393 | - | ompA | 100.0 | 98.1 | AAF37887 | (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00007 | 65892 | 66851 | + | ybtA | 100.0 | 99.5 | NP_405473 | (ybtA) transcriptional regulator YbtA [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00007 | 84629 | 86206 | + | ybtE | 100.0 | 99.8 | NP_405468 | (ybtE) yersiniabactin siderophore biosynthetic protein [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00007 | 63923 | 65725 | - | ybtP | 100.0 | 99.6 | NP_405474 | (ybtP) lipoprotein inner membrane ABC-transporter [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00007 | 62134 | 63936 | - | ybtQ | 100.0 | 99.6 | NP_405475 | (ybtQ) inner membrane ABC-transporter YbtQ [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00007 | 59529 | 60833 | - | ybtS | 100.0 | 99.9 | NP_405477 | (ybtS) salicylate synthase Irp9 [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00007 | 83822 | 84625 | + | ybtT | 100.0 | 99.8 | NP_405469 | (ybtT) yersiniabactin biosynthetic protein YbtT [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00007 | 82725 | 83825 | + | ybtU | 100.0 | 100.0 | NP_405470 | (ybtU) yersiniabactin biosynthetic protein YbtU [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00007 | 60861 | 62141 | - | ybtX | 100.0 | 99.7 | NP_405476 | (ybtX) putative signal transducer [Yersiniabactin (VF0136)] [Yersinia pestis CO92] |
| contig00058 | 25032 | 25622 | + | ykgK/ecpR | 100.0 | 97.0 | NP_286011 | (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
ID051II
| Contig | Start | End | Strand | Gene | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00299 | 3151 | 4002 | + | entB | 99.3 | 82.5 | NP_752613 | (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00470 | 127 | 898 | + | fepC | 94.6 | 80.0 | NP_752606 | (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00031 | 8550 | 9620 | - | ompA | 100.0 | 83.8 | AAF37887 | (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00133 | 384 | 1137 | - | yagV/ecpE | 99.7 | 84.1 | NP_286006 | (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00133 | 1063 | 2706 | - | yagW/ecpD | 100.0 | 88.3 | NP_286007 | (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00133 | 2696 | 5221 | - | yagX/ecpC | 100.0 | 86.9 | NP_286008 | (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00133 | 5247 | 5915 | - | yagY/ecpB | 100.0 | 87.7 | NP_286009 | (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00133 | 5977 | 6560 | - | yagZ/ecpA | 99.3 | 90.2 | NP_286010 | (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00133 | 6634 | 7214 | - | ykgK/ecpR | 98.3 | 86.9 | NP_286011 | (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
ID064
| Contig | Start | End | Strand | Gene | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00150 | 4866 | 5611 | + | entA | 99.2 | 80.6 | NP_752614 | (entA) 23-dihydro-23-dihydroxybenzoate dehydrogenase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00150 | 4005 | 4856 | + | entB | 99.2 | 82.3 | NP_752613 | (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00372 | 176 | 947 | + | fepC | 94.6 | 81.2 | NP_752606 | (fepC) ferrienterobactin ABC transporter ATPase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00005 | 58780 | 59850 | + | ompA | 100.0 | 83.8 | AAF37887 | (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00138 | 10567 | 11320 | + | yagV/ecpE | 99.7 | 85.2 | NP_286006 | (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00138 | 8998 | 10641 | + | yagW/ecpD | 100.0 | 88.2 | NP_286007 | (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00138 | 6483 | 9008 | + | yagX/ecpC | 100.0 | 87.3 | NP_286008 | (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00138 | 5789 | 6457 | + | yagY/ecpB | 100.0 | 87.7 | NP_286009 | (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00138 | 5143 | 5726 | + | yagZ/ecpA | 99.3 | 90.1 | NP_286010 | (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00138 | 4488 | 5068 | + | ykgK/ecpR | 98.3 | 86.8 | NP_286011 | (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
ID100
| Contig | Start | End | Strand | Gene | Coverage | Identity | Accession | Product |
|---|---|---|---|---|---|---|---|---|
| contig00694 | 597 | 1448 | + | entB | 99.2 | 82.3 | NP_752613 | (entB) isochorismatase [Enterobactin (VF0228)] [Escherichia coli CFT073] |
| contig00026 | 10774 | 11844 | + | ompA | 100.0 | 83.8 | AAF37887 | (ompA) outer membrane protein A [OmpA (VF0236)] [Escherichia coli O18:K1:H7 str. RS218] |
| contig00320 | 3634 | 4387 | + | yagV/ecpE | 99.7 | 85.4 | NP_286006 | (yagV/ecpE) E. coli common pilus chaperone EcpE [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00320 | 2065 | 3708 | + | yagW/ecpD | 100.0 | 88.6 | NP_286007 | (yagW/ecpD) polymerized tip adhesin of ECP fibers [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00320 | 1 | 2075 | + | yagX/ecpC | 82.1 | 87.8 | NP_286008 | (yagX/ecpC) E. coli common pilus usher EcpC [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00229 | 5202 | 5870 | + | yagY/ecpB | 100.0 | 87.7 | NP_286009 | (yagY/ecpB) E. coli common pilus chaperone EcpB [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00229 | 4556 | 5139 | + | yagZ/ecpA | 99.3 | 90.1 | NP_286010 | (yagZ/ecpA) E. coli common pilus structural subunit EcpA [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
| contig00229 | 3901 | 4481 | + | ykgK/ecpR | 98.3 | 86.4 | NP_286011 | (ykgK/ecpR) regulator protein EcpR [ECP (VF0404)] [Escherichia coli O157:H7 str. EDL933] |
Multi-Locus Sequence Typing (MLST)
| Symbol | Meaning |
|---|---|
| ~ | novel full length allele similar to match |
| ? | partial match to known allele |
| - | allele missing |
| Scheme | ST | 1 | 2 | 3 | 4 | 5 | 6 | 7 | |
|---|---|---|---|---|---|---|---|---|---|
| ID014 | kpneumoniae | 297 | gapA(31) | infB(1) | mdh(1) | pgi(37) | phoE(3) | rpoB(27) | tonB(64) |
| ID022 | kpneumoniae | - | gapA(2) | infB(1) | mdh(~77) | pgi(1) | phoE(17) | rpoB(4) | tonB(42) |
| ID030I | ecoli | 1193 | adk(14) | fumC(14) | gyrB(10) | icd(200) | mdh(17) | purA(7) | recA(10) |
| ID030II | ecoli | - | adk(34) | fumC(36) | gyrB(39) | icd(~87) | mdh(67) | purA(16) | recA(4) |
| ID030III | ecoli | 46 | adk(8) | fumC(7) | gyrB(1) | icd(8) | mdh(8) | purA(8) | recA(6) |
| ID042 | ecoli | 1193 | adk(14) | fumC(14) | gyrB(10) | icd(200) | mdh(17) | purA(7) | recA(10) |
| ID049 | ecoli | 167 | adk(10) | fumC(11) | gyrB(4) | icd(8) | mdh(8) | purA(13) | recA(2) |
| ID051II | kpneumoniae | 824 | gapA(18) | infB(22) | mdh(18) | pgi(22) | phoE(79) | rpoB(41) | tonB(51) |
| ID064 | kpneumoniae | 188 | gapA(3) | infB(1) | mdh(1) | pgi(3) | phoE(4) | rpoB(28) | tonB(39) |
| ID100 | kpneumoniae | 3586 | gapA(2) | infB(1) | mdh(2) | pgi(1) | phoE(7) | rpoB(195) | tonB(7) |
Pangenome Analysis
Pangenome genes summary
| Genes | Description | Number |
|---|---|---|
| Core genes | (99% <= strains <= 100%) | 338 |
| Soft core genes | (95% <= strains < 99%) | 0 |
| Shell genes | (15% <= strains < 95%) | 9648 |
| Cloud genes | (0% <= strains < 15%) | 5423 |
| Total genes | (0% <= strains <= 100%) | 15409 |
Schematic representation of genes presence (color) or absence (blank) between samples:
Pangenome tree based on presence/absence of accessory genes representation
Rectangular (phylogram)
Circular (phylogram)
Circular (cladogram)
Pangenome tree based on core genome alignment representation
Rectangular (phylogram)
Circular (phylogram)
Circular (cladogram)
Insertion sequence characterization
| Field | Description |
|---|---|
| Region | Numeric code given to insertion sequence (IS) |
| Orientation | The orientation of IS position: Either forward (F) or reverse (F) |
| X-cordinates | The left coordinate of the position |
| Y-coordinates | The right coordinate of the position |
| Gap | The distance between the x and y coordinates |
| CallType | Describes whether a position hit is novel (not in reference) or known (in the reference) |
| LeftGene | Locus tag ID of the gene closest to the left side of the IS position |
| LeftGeneDescription | Description of the gene feature from the left side of the IS position. By default this is the product position |
| RightGene | Locus tag ID of the gene closest to the right side of the IS position |
| RightGeneDescription | Description of the gene feature from the right side of the IS position. By default this is the product position |
Select the sample
ID014
| Region | Orientation | X-coordinates | Y-coordinates | Gap | CallType | LeftGene | LeftGeneDescription | RightGene | RightGeneDescription |
|---|---|---|---|---|---|---|---|---|---|
| region_1 | R | 1541645 | 1541645 | 0 | novel | AC565_07505 | transcriptional regulator | AC565_07510 | lysine/cadaverine antiporter |
ID022
| Region | Orientation | X-coordinates | Y-coordinates | Gap | CallType | LeftGene | LeftGeneDescription | RightGene | RightGeneDescription |
|---|---|---|---|---|---|---|---|---|---|
| region_1 | F | 853523 | 853550 | 27 | novel* | AC565_04140 | transposase | AC565_04145 | hypothetical protein |
| region_2 | R | 2739860 | 2739879 | 19 | novel* | AC565_13225 | hypothetical protein | AC565_13230 | hypothetical protein |
ID030III
| Region | Orientation | X-coordinates | Y-coordinates | Gap | CallType | LeftGene | LeftGeneDescription | RightGene | RightGeneDescription |
|---|---|---|---|---|---|---|---|---|---|
| region_1 | R | -1 | 3216702 | 3216703 | novel | AC565_27010 | mannosyl-glycoprotein endo-beta-N-acetylglucosamidase | AC565_15690 | transposase |
| region_2 | R | -1 | 3219252 | 3219253 | novel | AC565_27010 | mannosyl-glycoprotein endo-beta-N-acetylglucosamidase | AC565_15705 | transposase |
ID030I
| Region | Orientation | X-coordinates | Y-coordinates | Gap | CallType | LeftGene | LeftGeneDescription | RightGene | RightGeneDescription |
|---|---|---|---|---|---|---|---|---|---|
| region_1 | R | -1 | 3216934 | 3216935 | novel | AC565_27010 | mannosyl-glycoprotein endo-beta-N-acetylglucosamidase | AC565_15690 | transposase |
ID042
| Region | Orientation | X-coordinates | Y-coordinates | Gap | CallType | LeftGene | LeftGeneDescription | RightGene | RightGeneDescription |
|---|---|---|---|---|---|---|---|---|---|
| region_1 | R | 241150 | 241721 | 571 | novel* | AC565_01180 | transposase | AC565_01180 | transposase |
| region_2 | R | 2544441 | 2545085 | 644 | novel* | AC565_12285 | transposase | AC565_12285 | transposase |
| region_3 | F | 3264947 | 3265503 | 556 | novel* | AC565_15950 | transposase | AC565_15950 | transposase |
ID100
| Region | Orientation | X-coordinates | Y-coordinates | Gap | CallType | LeftGene | LeftGeneDescription | RightGene | RightGeneDescription |
|---|---|---|---|---|---|---|---|---|---|
| region_1 | R | 867969 | 867978 | -9 | novel | AC565_04215 | Na+/xyloside symporter related transporter | AC565_04215 | Na+/xyloside symporter related transporter |
| region_2 | F | 2502295 | 2502304 | -9 | novel | AC565_12125 | transcriptional regulator | AC565_12125 | transcriptional regulator |
| region_3 | F | 3027875 | 3027884 | -9 | novel | AC565_14720 | glutathione ABC transporter ATP-binding protein | AC565_14720 | glutathione ABC transporter ATP-binding protein |
| region_4 | R | 4777150 | 4777242 | 92 | novel* | AC565_23395 | ferrous iron transporter B | AC565_23395 | ferrous iron transporter B |
| region_5 | F | 5007941 | 5007946 | 5 | novel | AC565_24655 | HdeB family protein | AC565_24660 | transcriptional regulator |
Citations and Bibliography
If you have used rMAP, please cite:
Sserwadda, I., & Mboowa, G. (2021). rMAP: the Rapid Microbial Analysis Pipeline for ESKAPE bacterial group whole-genome sequence data. Microbial genomics, 7(6), 10.1099/mgen.0.000583. https://doi.org/10.1099/mgen.0.000583
The philosophy of rMAP was built on the foundation of already pre-existing tools. As a token of gratitude to the authors of those numerous tools, please also cite:
- ABRicate, T. Seemann
- AmrfinderPlus, Feldgarden M. et al., 2019
- Any2fasta, T. Seemann
- Assembly-stats, Sanger Pathogens
- Biopython.convert, biopython.org
- Bwa, Li H. et al., 2009
- Bmge, Criscuolo et al., 2010
- Cairosvg, cairosvg.org
- Fasttree, M.N. Price et al., 2009
- Fastqc, Andrews S., 2010
- Freebayes, Garrison E. et al., 2012
- ISmapper, [Hawkey J. et al., 2015
- Iqtree, Nguyen L. et al., 2015
- Kleborate, Holt KE, 2020
- Mafft, Katoh K. et L., 2013
- Megahit, Li D. et al., 2015
- Mlst, T. Seemann
- Multiqc, Ewels P., 2016
- Nextflow, Tommaso et al., 2017
- Parallel, O. Tange, 2011
- Prodigal, Hyatt D. et al., 2010
- Prokka, T. Seemann, 2014
- Quast, A. Gurevich et al., 2013
- R-base, R Development Core Team, 2008
- ggplot2, H. Wickham, 2009
- ggtree, G. Yu et al., 2016
- knitr, Y. Xie, 2015
- plotly, C. Sievert et al., 2017
- RColorBrewer, E. Neuwirth and R.C. Brewer, 2014
- reshape2, H. Wickham, 2007
- rmarkdown, J.J. Allaire, 2015
- treeio, L-G. Wang et al., 2019
- Roary, A.J. Page et al., 2015
- Samclip, T. Seemann
- Samtools, Li H. et al., 2009
- Shovill, T. Seemann, 2020
- Snippy, T. Seemann
- SnpEff, Cingolani P. et al., 2012
- Tormes, Quijada NM. et al., 2019
- Trimmomatic, A.M. Bolger et al., 2014
- Unicycler, Wick RR. et al., 2017
- Vt, VT